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This page was generated on 2025-10-25 12:03 -0400 (Sat, 25 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4901
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4691
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4637
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4658
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 210/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-24 13:45 -0400 (Fri, 24 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    NA    NA  

CHECK results for biodbChebi on nebbiolo2

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.

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-10-24 21:38:22 -0400 (Fri, 24 Oct 2025)
EndedAt: 2025-10-24 21:39:45 -0400 (Fri, 24 Oct 2025)
EllapsedTime: 83.1 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.1’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘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
* 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 re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.15.1’
** 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 version 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-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 [2025-10-24 21:39:21.213][biodb::testContext]
biodb.INFO [2025-10-24 21:39:21.215][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-24 21:39:21.216][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-24 21:39:21.217][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-24 21:39:21.218][biodb::testContext]
biodb.INFO [2025-10-24 21:39:21.225][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-24 21:39:21.227][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-24 21:39:21.234][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:21.235][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-24 21:39:21.236][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-24 21:39:21.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.240][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-24 21:39:21.258][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-24 21:39:21.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.262][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-24 21:39:21.263][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-24 21:39:21.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.278][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-24 21:39:21.279][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-24 21:39:21.280][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-24 21:39:21.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.283][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-24 21:39:21.284][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-24 21:39:21.285][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-24 21:39:21.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.289][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-24 21:39:21.290][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-24 21:39:21.291][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.292][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[2025-10-24 21:39:21.293][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-24 21:39:21.294][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-24 21:39:21.295][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-24 21:39:21.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.298][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.299][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-24 21:39:21.300][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-24 21:39:21.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.303][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-24 21:39:21.304][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-24 21:39:21.305][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-24 21:39:21.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.309][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-24 21:39:21.310][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-24 21:39:21.311][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-24 21:39:21.312][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-24 21:39:21.313][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-24 21:39:21.314][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-24 21:39:21.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.317][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-24 21:39:21.318][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-24 21:39:21.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.322][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-24 21:39:21.323][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-24 21:39:21.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.326][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-24 21:39:21.327][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-24 21:39:21.328][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.331][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-24 21:39:21.332][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-24 21:39:21.333][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-24 21:39:21.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.337][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-24 21:39:21.338][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-24 21:39:21.342][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-24 21:39:21.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.346][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-24 21:39:21.347][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-24 21:39:21.349][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-24 21:39:21.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.351][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[2025-10-24 21:39:21.355][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-24 21:39:21.389][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.406][self$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[2025-10-24 21:39:21.407][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.408][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:21.409][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.410][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.411][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.412][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.413][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-24 21:39:21.414][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:21.415][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.416][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-24 21:39:21.426][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:21.427][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.429][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.430][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:21.430][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:21.430][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:21.430][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-24 21:39:21.430][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-24 21:39:21.431][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:21.432][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.433][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.434][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:21.435][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.436][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.437][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.438][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.439][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:21.440][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:21.441][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.442][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.444][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-24 21:39:21.446][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.447][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-24 21:39:21.449][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.450][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:21.451][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.452][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.453][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.454][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.455][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-24 21:39:21.456][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:21.457][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.458][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-24 21:39:21.459][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:21.460][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.461][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.462][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:21.462][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:21.462][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:21.462][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-24 21:39:21.462][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-24 21:39:21.464][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:21.465][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.465][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.467][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:21.468][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.468][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.469][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.471][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.472][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:21.473][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:21.474][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.475][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.476][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-24 21:39:21.478][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.479][self$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[2025-10-24 21:39:21.480][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.481][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:21.482][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.483][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.484][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.485][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.486][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-24 21:39:21.487][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:21.488][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.489][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-24 21:39:21.490][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:21.492][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.493][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.494][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.495][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:21.496][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.497][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.498][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:21.499][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.500][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.501][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.502][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.503][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:21.504][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:21.505][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.506][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.507][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-24 21:39:21.509][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.531][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-24 21:39:21.532][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.533][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:21.534][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.535][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.536][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.537][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.538][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-24 21:39:21.539][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:21.540][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.541][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-24 21:39:21.542][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:21.543][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.545][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.546][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.547][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:21.548][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.549][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.550][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:21.551][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.552][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.553][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.554][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.555][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:21.556][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:21.557][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.558][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:21.562][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:21.563][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.574][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[2025-10-24 21:39:21.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.604][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[2025-10-24 21:39:21.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.610][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[2025-10-24 21:39:21.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.621][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[2025-10-24 21:39:21.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.633][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.638][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.649][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-24 21:39:21.654][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-24 21:39:21.656][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-24 21:39:21.658][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-24 21:39:21.660][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-24 21:39:21.661][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-24 21:39:21.663][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-24 21:39:21.664][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-24 21:39:21.666][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-24 21:39:21.668][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-24 21:39:21.669][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-24 21:39:21.671][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-24 21:39:21.672][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-24 21:39:21.674][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-24 21:39:21.676][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-24 21:39:21.678][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-24 21:39:21.679][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-24 21:39:21.681][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-24 21:39:21.682][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-24 21:39:21.684][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-24 21:39:21.685][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-24 21:39:21.687][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-24 21:39:21.688][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-24 21:39:21.690][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-24 21:39:21.691][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-24 21:39:21.693][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-24 21:39:21.694][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-24 21:39:21.695][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-24 21:39:21.697][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-24 21:39:21.698][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-24 21:39:21.700][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-24 21:39:21.701][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-24 21:39:21.703][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-24 21:39:21.704][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-24 21:39:21.706][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-24 21:39:21.707][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-24 21:39:21.708][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-24 21:39:21.710][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-24 21:39:21.711][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-24 21:39:21.712][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-24 21:39:21.714][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-24 21:39:21.715][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-24 21:39:21.716][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-24 21:39:21.718][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-24 21:39:21.719][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-24 21:39:21.721][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-24 21:39:21.722][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-24 21:39:21.723][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-24 21:39:21.725][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-24 21:39:21.726][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-24 21:39:21.728][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-24 21:39:21.729][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-24 21:39:21.730][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-24 21:39:21.732][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-24 21:39:21.733][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-24 21:39:21.734][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-24 21:39:21.736][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-24 21:39:21.737][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-24 21:39:21.739][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-24 21:39:21.740][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-24 21:39:21.741][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-24 21:39:21.743][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-24 21:39:21.744][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-24 21:39:21.746][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-24 21:39:21.747][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-24 21:39:21.749][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-24 21:39:21.750][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-24 21:39:21.751][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-24 21:39:21.753][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-24 21:39:21.754][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-24 21:39:21.756][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-24 21:39:21.758][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-24 21:39:21.759][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-24 21:39:21.761][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-24 21:39:21.762][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-24 21:39:21.764][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-24 21:39:21.765][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-24 21:39:21.767][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-24 21:39:21.777][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-24 21:39:21.779][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-24 21:39:21.781][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-24 21:39:21.782][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-24 21:39:21.784][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-24 21:39:21.791][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-24 21:39:21.793][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-24 21:39:21.796][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:21.797][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.799][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.811][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[2025-10-24 21:39:21.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.817][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[2025-10-24 21:39:21.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.823][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[2025-10-24 21:39:21.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.829][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[2025-10-24 21:39:21.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.835][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.843][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.846][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.861][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[2025-10-24 21:39:21.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.888][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:21.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:21.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:21.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:21.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:21.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:21.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:21.906][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-24 21:39:21.916][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-24 21:39:21.919][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.920][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.921][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.922][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:21.923][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.924][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.925][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.926][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-24 21:39:21.927][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-24 21:39:21.928][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:21.929][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.930][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-24 21:39:21.931][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-24 21:39:21.932][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-24 21:39:21.933][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:21.934][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:21.934][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:21.934][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:21.935][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-24 21:39:21.936][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:21.939][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:21.940][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:21.941][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:21.942][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-24 21:39:21.942][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-24 21:39:21.943][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:21.944][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:21.945][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:21.946][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-24 21:39:21.946][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-24 21:39:21.952][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-24 21:39:21.954][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-24 21:39:21.956][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-24 21:39:21.957][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-24 21:39:21.959][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-24 21:39:21.961][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-24 21:39:21.985][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-24 21:39:22.001][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-24 21:39:22.019][biodb::testThat]
biodb.INFO [2025-10-24 21:39:22.020][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-24 21:39:22.021][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:22.022][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:22.026][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-24 21:39:22.027][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:22.031][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:22.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:22.039][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:22.040][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:22.052][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:22.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:22.054][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:22.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:22.064][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.065][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.085][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:22.086][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:22.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.088][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.115][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:22.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:22.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.120][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:22.121][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:22.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.124][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:22.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:22.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.131][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.137][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.138][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.145][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.146][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.149][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.153][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:22.154][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.156][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.158][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:22.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.162][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.163][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.165][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.166][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.170][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:22.171][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:22.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.175][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:22.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:22.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.179][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:22.180][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.181][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.183][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:22.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.187][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:22.188][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:22.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.190][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.191][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:22.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:22.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:22.274][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-24 21:39:22.277][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.324][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-24 21:39:22.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-24 21:39:22.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.329][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-24 21:39:22.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-24 21:39:22.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.333][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-24 21:39:22.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-24 21:39:22.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.336][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-24 21:39:22.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-24 21:39:22.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.430][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.431][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.433][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.447][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.452][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.461][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.462][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:22.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.477][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:22.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:22.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.481][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:22.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:22.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:22.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:22.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.489][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:22.490][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:22.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.492][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.493][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:22.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:22.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.505][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:22.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:22.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.509][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:22.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:22.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:22.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:22.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.517][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:22.518][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:22.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.520][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.521][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:22.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:22.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.537][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.545][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.548][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.574][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.576][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.578][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.644][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:22.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:22.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.649][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:22.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:22.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.653][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:22.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:22.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.657][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:22.658][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:22.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.660][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.661][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:22.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:22.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.673][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.677][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.681][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.685][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.686][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.689][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.701][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.705][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.709][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.713][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.714][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.716][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.717][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.729][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:22.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:22.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.733][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:22.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:22.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.737][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:22.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:22.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.741][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:22.742][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:22.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.744][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.745][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:22.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:22.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.760][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.768][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.769][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.771][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.772][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.783][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.792][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.796][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.797][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.799][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.800][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.811][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.813][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.815][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.819][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:22.821][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:22.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.823][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.832][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:22.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:22.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.836][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.841][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:22.842][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:22.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.848][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.849][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:22.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.851][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.856][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.857][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:22.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.864][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.865][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:22.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.872][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.873][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:22.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.880][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.882][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:22.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.888][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:22.889][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:22.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.896][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:22.897][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:22.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.899][ef$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:22.907][biodb::testThat]
biodb.INFO [2025-10-24 21:39:22.909][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-24 21:39:22.910][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:22.910][biodb::testThat]
biodb.DEBUG[2025-10-24 21:39:22.926][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-24 21:39:22.929][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:22.932][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:22.939][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-24 21:39:22.940][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:22.965][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:22.966][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:22.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:22.969][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:22.970][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:22.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:22.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:22.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:22.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:22.981][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.982][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:22.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:22.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:22.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:22.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.007][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:23.009][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:23.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.011][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.012][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:23.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:23.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.016][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:23.022][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:23.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.024][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:23.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:23.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.030][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:23.031][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:23.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:23.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:23.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.038][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.039][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.041][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.046][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:23.047][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:23.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.051][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:23.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:23.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.055][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:23.056][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.058][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.059][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:23.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.063][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:23.064][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:23.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.066][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:23.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:23.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.072][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.073][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.076][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.081][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:23.082][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:23.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.084][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.085][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:23.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:23.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.089][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:23.091][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:23.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.094][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:23.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:23.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:23.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:23.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:23.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:23.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:23.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:23.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:23.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:23.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:23.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:23.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:23.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:23.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:23.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:23.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:23.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:23.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:23.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:23.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:23.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:23.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:23.139][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-24 21:39:23.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-24 21:39:23.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-24 21:39:23.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-24 21:39:23.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-24 21:39:23.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-24 21:39:23.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-24 21:39:23.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:23.159][biodb::testThat]
biodb.INFO [2025-10-24 21:39:23.160][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-24 21:39:23.161][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:23.162][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:23.165][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.166][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.168][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:23.169][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-24 21:39:23.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.198][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.202][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:23.212][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-24 21:39:23.218][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-24 21:39:23.237][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:23.243][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-24 21:39:23.245][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:23.264][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".
fscache.INFO [2025-10-24 21:39:23.295][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:23.299][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-24 21:39:23.301][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:23.303][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-24 21:39:23.314][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:23.315][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:23.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.317][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.318][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.319][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.321][ef$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:23.325][biodb::testThat]
biodb.INFO [2025-10-24 21:39:23.326][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-24 21:39:23.327][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:23.328][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:23.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:23.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:23.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:23.421][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".
fscache.INFO [2025-10-24 21:39:23.424][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:23.427][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-24 21:39:23.428][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-24 21:39:23.443][biodb::testThat]
biodb.INFO [2025-10-24 21:39:23.445][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-24 21:39:23.446][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:23.447][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:23.467][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:23.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:23.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.472][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:23.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:23.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.492][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-24 21:39:23.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-24 21:39:23.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.496][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-24 21:39:23.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-24 21:39:23.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.500][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-24 21:39:23.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-24 21:39:23.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.504][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-24 21:39:23.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-24 21:39:23.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.526][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:23.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:23.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.530][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:23.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:23.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.534][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.538][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:23.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:23.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.554][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-24 21:39:23.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-24 21:39:23.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.558][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-24 21:39:23.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-24 21:39:23.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.562][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-24 21:39:23.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-24 21:39:23.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:23.566][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-24 21:39:23.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-24 21:39:23.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:23.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:23.575][biodb::testThat]
biodb.INFO [2025-10-24 21:39:23.577][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-24 21:39:23.578][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:23.578][biodb::testThat]
biodb.INFO [2025-10-24 21:39:23.586][biodb::testThat]
biodb.INFO [2025-10-24 21:39:23.587][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-24 21:39:23.588][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:23.589][biodb::testThat]
biodb.INFO [2025-10-24 21:39:23.596][biodb::testThat]
biodb.INFO [2025-10-24 21:39:23.598][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-24 21:39:23.599][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:23.599][biodb::testThat]
biodb.DEBUG[2025-10-24 21:39:23.603][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-24 21:39:24.326][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-24 21:39:24.908][biodb::testThat]
biodb.INFO [2025-10-24 21:39:24.910][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-24 21:39:24.912][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:24.913][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:24.922][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:24.924][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:24.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:24.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:24.928][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:24.930][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:24.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:24.933][ef$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:24.935][biodb::testThat]
biodb.INFO [2025-10-24 21:39:24.937][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-24 21:39:24.938][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:24.939][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:24.951][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:24.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:24.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:24.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:24.956][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:24.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:24.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:24.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:24.960][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:24.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:24.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:24.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:25.066][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".
fscache.INFO [2025-10-24 21:39:25.069][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:25.072][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-24 21:39:25.073][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:25.155][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".
fscache.INFO [2025-10-24 21:39:25.158][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:25.161][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-24 21:39:25.162][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-24 21:39:25.176][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-24 21:39:25.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-24 21:39:25.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.184][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:25.215][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".
fscache.INFO [2025-10-24 21:39:25.218][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:25.220][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-24 21:39:25.221][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:25.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.230][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.232][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:25.234][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-24 21:39:25.280][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:25.282][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:25.285][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-24 21:39:25.286][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:25.288][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:25.289][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:25.291][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.300][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.TRACE[2025-10-24 21:39:25.302][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.304][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.311][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:25.312][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:25.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.313][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.315][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:25.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:25.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.319][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:25.320][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:25.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.323][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:25.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:25.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.327][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:25.328][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:25.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:25.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:25.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.335][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.336][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.338][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.339][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.343][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:25.349][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:25.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.352][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:25.353][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.355][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.356][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:25.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.361][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.362][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.368][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:25.369][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:25.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.372][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:25.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:25.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.376][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:25.377][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:25.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.380][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:25.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:25.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.384][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:25.385][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:25.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.386][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.388][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:25.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:25.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:25.431][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-24 21:39:25.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:25.455][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:25.458][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:25.460][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-24 21:39:25.461][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:25.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:25.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:25.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:25.515][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-24 21:39:25.516][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:25.517][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:25.520][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-24 21:39:25.522][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:25.523][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:25.524][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:25.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:25.536][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.538][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.539][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.545][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:25.546][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:25.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.547][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.549][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:25.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:25.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.553][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:25.554][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:25.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:25.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:25.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.561][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:25.562][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:25.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.564][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.566][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:25.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:25.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.570][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.571][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.572][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.578][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:25.579][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:25.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.581][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.582][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:25.583][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.585][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.587][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:25.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.591][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.592][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.594][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.599][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:25.600][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:25.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.602][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.603][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:25.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:25.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.608][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:25.609][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:25.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.611][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.612][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:25.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:25.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.616][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:25.617][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:25.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.619][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.620][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:25.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:25.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:25.664][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-24 21:39:25.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:25.700][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".
fscache.INFO [2025-10-24 21:39:25.703][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:25.706][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-24 21:39:25.708][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:25.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.720][FUN] Functions in observer BiodbConfig: [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[2025-10-24 21:39:25.721][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.729][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:25.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.743][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[2025-10-24 21:39:25.744][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-24 21:39:25.745][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:25.746][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:25.749][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-24 21:39:25.750][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:25.752][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:25.753][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:25.754][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.764][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[2025-10-24 21:39:25.767][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.768][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.770][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.775][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:25.776][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:25.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.778][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.779][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:25.780][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:25.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.782][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.784][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:25.785][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:25.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.787][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.789][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.791][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.792][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:25.793][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:25.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.795][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.796][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:25.797][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.799][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.800][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.801][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.804][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:25.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:25.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.807][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.809][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:25.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:25.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.813][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:25.814][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:25.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.816][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.817][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:25.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:25.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.821][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:25.822][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:25.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.824][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.829][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:25.868][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-24 21:39:25.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.873][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.877][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:25.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.897][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:25.899][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-24 21:39:25.900][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:25.902][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:25.906][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-24 21:39:25.907][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:25.908][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:25.909][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:25.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:25.912][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:25.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:25.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:25.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:25.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:25.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:25.923][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.924][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.926][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.931][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:25.932][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:25.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.936][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:25.937][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:25.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.939][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.940][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:25.941][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:25.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.943][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.944][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.945][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:25.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.947][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.949][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:25.950][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:25.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.952][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.953][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:25.954][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:25.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.957][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.958][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:25.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.961][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:25.962][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:25.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.964][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.966][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:25.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:25.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.970][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:25.971][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:25.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.974][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:25.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:25.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.978][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:25.979][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:25.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:25.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:25.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:25.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:25.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:25.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.026][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-24 21:39:26.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.043][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:26.058][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-24 21:39:26.059][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:26.060][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:26.064][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-24 21:39:26.065][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:26.066][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:26.067][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:26.069][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.078][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.TRACE[2025-10-24 21:39:26.080][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.082][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.083][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.089][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.090][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.092][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.093][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.094][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.096][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.098][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.099][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.101][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.102][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.103][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.105][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.106][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.107][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.109][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.111][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.112][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.114][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.115][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.116][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.118][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.119][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.120][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.122][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.128][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.129][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.131][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.133][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.137][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.138][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.140][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.186][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-24 21:39:26.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:26.217][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-24 21:39:26.218][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:26.219][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:26.224][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-24 21:39:26.225][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:26.227][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:26.228][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:26.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:26.242][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.243][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.250][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.251][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.253][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.255][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.259][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.260][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.262][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.264][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.268][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.269][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.276][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.277][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.279][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.281][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.285][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.286][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.289][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.293][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.294][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.296][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.297][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.301][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.302][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.304][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.309][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.310][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.312][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.318][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.320][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.322][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.328][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.330][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.376][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-24 21:39:26.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.384][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.389][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.390][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.395][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:26.398][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-24 21:39:26.399][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:26.401][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:26.406][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-24 21:39:26.407][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:26.408][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:26.409][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:26.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.420][FUN] Functions in observer BiodbConfig: [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[2025-10-24 21:39:26.422][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.423][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.425][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.431][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.432][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.433][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.435][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.439][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.440][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.442][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.443][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.447][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.448][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.450][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.451][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.455][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.456][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.458][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.460][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.464][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.465][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.467][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.468][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.472][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.473][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.475][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.476][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.480][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.481][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.482][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.484][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.488][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.489][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.490][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.492][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.496][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.497][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.498][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.500][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.504][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.505][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.506][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.508][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.554][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-24 21:39:26.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:26.577][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-24 21:39:26.578][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:26.580][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:26.584][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-24 21:39:26.585][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:26.586][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:26.587][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:26.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:26.601][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.602][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.604][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.609][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.610][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.612][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.613][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.617][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.618][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.620][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.622][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.629][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.630][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.634][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.635][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.637][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.638][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.642][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.643][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.645][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.646][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.647][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.650][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.655][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.657][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.662][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.663][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.665][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.667][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.670][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.671][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.678][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.679][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.683][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.684][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.685][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.687][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.690][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.713][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.729][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-24 21:39:26.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:26.752][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-24 21:39:26.753][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:26.754][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:26.758][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-24 21:39:26.759][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:26.761][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:26.762][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:26.763][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.764][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.772][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:26.775][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.776][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.778][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.783][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.784][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.786][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.787][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.791][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.792][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.794][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.796][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.800][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.801][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.802][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.804][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.808][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.809][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.810][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.812][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.816][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.817][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.818][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.820][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.821][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.823][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.824][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.828][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.829][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.831][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:26.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.841][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.842][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.845][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:26.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:26.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.849][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.850][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.852][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.853][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:26.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:26.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.857][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.858][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.861][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:26.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:26.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:26.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.905][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-24 21:39:26.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.910][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:26.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:26.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:26.929][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-24 21:39:26.930][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:26.931][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:26.935][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-24 21:39:26.936][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:26.937][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:26.939][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:26.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:26.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:26.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:26.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:26.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:26.949][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:26.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:26.952][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.953][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.955][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:26.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:26.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.960][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.961][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:26.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:26.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.968][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.969][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.971][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.973][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:26.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:26.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.977][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.978][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.979][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.980][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:26.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:26.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.985][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.986][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.988][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:26.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.993][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.994][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:26.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:26.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:26.997][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:26.999][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.007][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.011][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.012][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.014][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.019][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.020][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.022][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.028][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.029][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.031][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.032][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.036][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.037][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.039][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.085][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-24 21:39:27.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:27.109][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-24 21:39:27.110][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:27.111][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:27.115][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-24 21:39:27.116][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:27.117][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:27.119][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:27.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.130][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.TRACE[2025-10-24 21:39:27.132][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.134][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.135][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.141][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.142][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.144][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.146][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.149][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.151][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.151][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.152][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.154][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.158][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:27.159][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:27.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:27.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.166][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.167][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.174][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.175][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.179][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.180][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.182][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.183][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.184][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.186][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.187][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.191][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.192][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.199][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.200][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.202][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.203][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.207][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.208][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.210][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.211][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.215][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.217][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.218][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.220][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.237][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.265][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-24 21:39:27.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:27.289][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-24 21:39:27.290][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:27.292][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:27.296][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-24 21:39:27.297][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:27.298][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:27.299][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:27.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:27.314][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.315][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.317][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.323][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.324][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.326][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.327][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.331][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.333][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.334][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.336][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.347][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:27.348][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:27.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.351][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:27.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:27.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.356][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.357][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.359][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.360][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.364][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.365][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.367][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.369][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.370][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.373][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.378][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.379][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.381][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.386][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.387][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.395][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.396][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.400][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.404][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.405][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.407][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.409][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.417][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.442][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.454][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-24 21:39:27.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.467][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:27.478][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-24 21:39:27.479][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:27.480][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:27.483][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-24 21:39:27.484][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:27.485][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:27.486][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:27.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:27.500][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.502][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.508][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.536][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.539][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.541][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.545][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.546][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.548][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.549][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.553][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:27.554][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:27.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.557][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.558][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.560][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.561][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.562][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.564][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.565][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.566][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.568][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.569][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.573][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.574][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.576][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.581][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.582][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.584][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.586][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.590][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.591][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.593][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.594][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.598][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.599][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.631][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.643][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-24 21:39:27.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.652][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.662][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.664][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:27.666][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-24 21:39:27.667][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:27.668][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:27.671][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-24 21:39:27.672][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:27.673][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:27.674][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:27.676][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.677][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.678][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.684][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:27.687][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.696][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.697][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.703][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.705][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.709][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.710][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.712][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.717][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:27.718][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:27.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.720][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.721][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.722][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.724][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.726][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.727][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.730][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.731][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.733][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.734][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.738][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.739][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.741][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.746][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.747][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.749][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.755][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.756][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.759][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.763][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.764][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.766][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.803][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.807][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-24 21:39:27.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.816][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.826][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:27.830][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-24 21:39:27.831][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:27.832][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:27.836][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-24 21:39:27.837][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:27.838][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:27.839][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:27.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.847][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:27.849][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:27.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:27.852][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.853][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.855][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.860][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.861][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.868][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:27.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:27.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.873][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.874][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.877][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:27.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:27.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.880][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:27.881][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:27.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.884][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:27.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:27.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.888][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.889][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:27.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.896][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.897][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:27.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.899][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.900][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.904][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:27.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.908][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.909][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:27.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.916][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.917][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.921][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:27.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:27.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.925][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.926][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.929][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:27.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:27.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.933][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.934][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.937][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:27.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:27.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:27.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.960][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:27.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:27.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.980][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-24 21:39:27.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:27.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:27.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:27.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:27.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:27.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:27.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:27.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:27.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:28.002][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-24 21:39:28.003][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:28.005][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:28.009][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-24 21:39:28.010][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:28.011][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:28.012][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:28.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:28.025][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.026][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.032][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.038][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.039][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.040][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.042][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.046][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.047][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.050][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.054][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.055][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.057][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.058][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.062][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.063][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.065][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.066][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.070][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.071][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.073][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.074][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.075][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.077][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.078][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.082][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.083][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.085][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.090][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.092][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.095][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.099][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.100][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.101][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.102][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.103][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.107][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.108][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.111][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.115][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.151][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.154][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-24 21:39:28.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.167][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.168][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.173][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.175][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:28.177][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-24 21:39:28.178][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:28.179][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:28.183][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-24 21:39:28.184][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:28.185][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:28.187][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:28.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.201][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.202][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[2025-10-24 21:39:28.205][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.206][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.213][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.214][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.217][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.220][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.221][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.223][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.225][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.228][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.230][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.231][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.236][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.239][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.245][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.246][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.248][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.249][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.250][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.252][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.253][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.257][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.258][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.260][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.266][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.267][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.269][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.270][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.274][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.275][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.277][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.278][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.282][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.283][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.285][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.286][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.291][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.329][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-24 21:39:28.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:28.357][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-24 21:39:28.358][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:28.360][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:28.364][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-24 21:39:28.365][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:28.366][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:28.367][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:28.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:28.380][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.381][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.383][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.388][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.389][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.392][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.396][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.400][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.404][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.405][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.407][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.408][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.412][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.413][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.415][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.416][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.420][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.421][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.423][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.424][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.425][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.427][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.429][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.433][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.434][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.435][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.441][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.442][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.444][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.445][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.449][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.450][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.453][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.458][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.459][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.460][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.462][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.469][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.477][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.504][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-24 21:39:28.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:28.532][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-24 21:39:28.533][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:28.534][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:28.538][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-24 21:39:28.539][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:28.540][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:28.541][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:28.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.552][FUN] Functions in observer BiodbConfig: [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[2025-10-24 21:39:28.554][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.555][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.557][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.562][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.563][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.565][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.566][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.570][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.571][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.573][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.574][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.578][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.579][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.581][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.582][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.587][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.588][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.590][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.595][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.596][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.598][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.599][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.600][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.602][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.603][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.607][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.608][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.616][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.617][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.619][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.624][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.625][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.627][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.628][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.632][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.633][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.635][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.636][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.669][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.686][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-24 21:39:28.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:28.709][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-24 21:39:28.710][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:28.712][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:28.715][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-24 21:39:28.716][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:28.717][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:28.718][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:28.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.726][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:28.731][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.732][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.734][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.740][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.741][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.744][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.748][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.749][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.757][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.758][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.760][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.765][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.766][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.768][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.769][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.773][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.774][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.776][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.777][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.778][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.780][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.781][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.786][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.787][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.788][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.794][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.795][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.796][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.798][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.802][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.803][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.805][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.806][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.810][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.811][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.813][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.814][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.863][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-24 21:39:28.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.868][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:28.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:28.886][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-24 21:39:28.887][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:28.888][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:28.892][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-24 21:39:28.893][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:28.894][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:28.895][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:28.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:28.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:28.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:28.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:28.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:28.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:28.906][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[2025-10-24 21:39:28.908][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.909][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:28.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:28.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.916][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.917][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.921][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:28.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:28.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.925][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.926][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.929][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:28.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:28.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:28.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:28.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.941][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.942][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.944][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:28.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.949][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.950][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:28.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.952][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.954][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.955][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.956][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.958][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:28.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:28.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.962][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.963][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:28.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.970][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.971][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.974][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:28.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:28.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.978][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.979][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.982][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:28.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:28.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.986][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.987][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.989][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.990][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:28.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:28.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:28.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:28.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:28.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.006][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.039][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-24 21:39:29.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:29.069][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:29.071][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:29.075][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-24 21:39:29.076][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:29.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.108][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.116][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.128][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.139][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.159][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.187][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.199][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.231][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.277][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.381][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.399][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.403][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.430][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.431][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.432][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.441][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.446][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.478][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.487][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:29.630][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:29.632][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:29.634][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-24 21:39:29.636][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:29.639][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:29.641][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:29.644][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-24 21:39:29.645][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:29.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:29.657][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-24 21:39:29.658][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:29.660][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:29.664][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-24 21:39:29.665][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:29.666][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:29.668][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:29.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.685][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.686][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.693][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:29.694][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:29.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.696][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.697][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:29.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:29.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.701][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:29.702][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:29.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.704][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.706][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:29.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:29.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.709][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:29.710][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:29.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.712][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.713][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:29.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:29.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.717][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:29.718][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:29.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.720][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.721][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:29.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:29.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.726][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:29.727][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:29.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.730][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:29.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:29.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.734][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:29.735][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.737][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.738][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:29.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.742][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.743][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.745][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.750][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:29.751][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:29.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.753][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.754][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:29.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:29.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.758][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:29.759][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:29.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.761][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.762][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:29.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:29.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.766][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:29.768][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:29.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.769][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.771][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:29.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:29.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.814][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-24 21:39:29.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:29.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:29.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.863][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.864][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[2025-10-24 21:39:29.865][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-24 21:39:29.866][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:29.867][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:29.871][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-24 21:39:29.872][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:29.873][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:29.875][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:29.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:29.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:29.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:29.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:29.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:29.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:29.885][FUN] Functions in observer BiodbConfig: [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[2025-10-24 21:39:29.887][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.888][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.890][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.895][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:29.896][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:29.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.900][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:29.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:29.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.904][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:29.905][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:29.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.907][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.908][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:29.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:29.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.912][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:29.913][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:29.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:29.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:29.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.920][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:29.921][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:29.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.923][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.925][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:29.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:29.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.929][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:29.930][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:29.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.931][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.933][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:29.934][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.937][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:29.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:29.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.942][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.944][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:29.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.949][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:29.950][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:29.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.952][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.953][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:29.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:29.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.957][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:29.958][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:29.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.961][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:29.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:29.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.965][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:29.966][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:29.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:29.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:29.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:29.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:29.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:29.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:29.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:29.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:30.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:30.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:30.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:30.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:30.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:30.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:30.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:30.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.017][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-24 21:39:30.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:30.046][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:30.049][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:30.053][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-24 21:39:30.054][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:30.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.067][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.105][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.165][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.202][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.203][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.204][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.217][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.223][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.234][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.257][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.267][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.268][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.278][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.283][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.284][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.331][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.332][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.337][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.338][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.339][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.341][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.363][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.383][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.384][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.389][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:30.550][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:30.552][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:30.556][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-24 21:39:30.557][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:30.560][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.561][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.562][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.608][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.612][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.613][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.620][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.657][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.692][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.731][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.748][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.748][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.754][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.756][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.814][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.833][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.838][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.846][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.847][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.855][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.865][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.921][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.923][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.939][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.966][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:30.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:30.970][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:30.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:30.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:30.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:30.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:30.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:30.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:30.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:30.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:30.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.030][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.070][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-24 21:39:31.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-24 21:39:31.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:31.081][biodb::testThat]
biodb.INFO [2025-10-24 21:39:31.082][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-24 21:39:31.083][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:31.084][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:31.087][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-24 21:39:31.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-24 21:39:31.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.095][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:31.122][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:31.125][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:31.126][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-24 21:39:31.127][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:31.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.136][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:31.158][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:31.160][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:31.162][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-24 21:39:31.163][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:31.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.209][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-24 21:39:31.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.219][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.230][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:31.231][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:31.232][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:31.233][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.234][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.241][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.242][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.243][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.244][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.246][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.247][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:31.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.252][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.269][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-24 21:39:31.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.284][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.288][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.289][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:31.290][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:31.291][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:31.291][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.292][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.293][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.295][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.297][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.300][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.301][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.307][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.308][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.311][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:31.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.324][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-24 21:39:31.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.343][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.343][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:31.344][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:31.345][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:31.346][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.347][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.348][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.351][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.352][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.355][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.356][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.357][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.358][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.361][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:31.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.374][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-24 21:39:31.375][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-24 21:39:31.376][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-24 21:39:31.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.466][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:31.471][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:31.473][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:31.475][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-24 21:39:31.476][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:31.479][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:31.481][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:31.484][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-24 21:39:31.485][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:31.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:31.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.577][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-24 21:39:31.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.624][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.625][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:31.626][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:31.627][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:31.628][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.629][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.630][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.632][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.633][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.634][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.636][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.638][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.640][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.641][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.642][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:31.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.656][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-24 21:39:31.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.666][FUN] Functions in observer BiodbConfig: [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[2025-10-24 21:39:31.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.708][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.709][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:31.710][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:31.711][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:31.712][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.713][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.714][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.716][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.717][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.718][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.720][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.721][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.732][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.733][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.734][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.736][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.737][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:31.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.742][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.757][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-24 21:39:31.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.776][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.777][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:31.778][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:31.779][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:31.780][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.781][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.782][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.784][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.785][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.787][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.788][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.789][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.790][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.791][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.793][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.794][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:31.795][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.799][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.804][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.808][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-24 21:39:31.809][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-24 21:39:31.810][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-24 21:39:31.819][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-24 21:39:31.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-24 21:39:31.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:31.826][biodb::testThat]
biodb.INFO [2025-10-24 21:39:31.827][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-24 21:39:31.828][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:31.829][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:31.832][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-24 21:39:31.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-24 21:39:31.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.860][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:31.866][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:31.868][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:31.870][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-24 21:39:31.871][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:31.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.888][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:31.896][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:31.899][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:31.901][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-24 21:39:31.902][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:31.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.942][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.946][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:31.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:31.954][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-24 21:39:31.955][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:31.956][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:31.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:31.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:31.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:31.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:31.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:31.966][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.974][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.975][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:31.976][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:31.977][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:31.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.979][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.980][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.983][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.984][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.986][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.987][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.988][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:31.989][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.990][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.992][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:31.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:31.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:31.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:31.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.001][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.006][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-24 21:39:32.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.016][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.TRACE[2025-10-24 21:39:32.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.026][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.027][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.028][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.029][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.030][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.031][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.032][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.033][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.034][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.036][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.037][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.038][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.039][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.042][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.043][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.056][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-24 21:39:32.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.081][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.082][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.083][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.084][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.085][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.089][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.090][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.091][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.094][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.094][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.095][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.096][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.098][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.099][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.112][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-24 21:39:32.113][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-24 21:39:32.114][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-24 21:39:32.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:32.152][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:32.155][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:32.157][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-24 21:39:32.158][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:32.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:32.163][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:32.166][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-24 21:39:32.167][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:32.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.179][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.201][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.240][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-24 21:39:32.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.249][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.251][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.259][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.260][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.261][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.262][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.263][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.264][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.265][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.267][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.268][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.270][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.271][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.272][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.277][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.291][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-24 21:39:32.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.301][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[2025-10-24 21:39:32.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.307][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.311][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.312][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.313][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.314][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.315][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.316][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.317][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.319][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.320][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.321][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.323][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.324][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.325][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.326][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.327][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.329][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.330][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.339][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.343][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-24 21:39:32.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.345][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.362][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.363][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.364][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.365][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.366][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.367][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.368][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.371][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.372][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.375][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.376][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.377][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.380][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.381][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.385][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.399][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-24 21:39:32.400][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-24 21:39:32.400][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-24 21:39:32.408][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-24 21:39:32.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-24 21:39:32.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:32.415][biodb::testThat]
biodb.INFO [2025-10-24 21:39:32.416][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-24 21:39:32.417][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:32.418][biodb::testThat]
biodb.TRACE[2025-10-24 21:39:32.420][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-24 21:39:32.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-24 21:39:32.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:32.455][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:32.457][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:32.459][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-24 21:39:32.460][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:32.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.469][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-24 21:39:32.485][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:32.487][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:32.490][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-24 21:39:32.491][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:32.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.523][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:32.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.536][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-24 21:39:32.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.539][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.540][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.544][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.561][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.562][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.563][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.564][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.565][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.565][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.566][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.568][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.569][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.570][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.572][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.573][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.574][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.575][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.576][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.578][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.578][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.591][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-24 21:39:32.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.610][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.611][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.612][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.613][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.614][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.615][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.617][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.618][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.620][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.621][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.624][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.625][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.625][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.626][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.628][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.629][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.630][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.642][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-24 21:39:32.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.650][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.661][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.662][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.663][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.664][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.665][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.666][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.667][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.669][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.670][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.671][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.673][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.674][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.675][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.675][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.676][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.678][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.679][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.688][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.692][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-24 21:39:32.693][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-24 21:39:32.694][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-24 21:39:32.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:32.746][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:32.748][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:32.750][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-24 21:39:32.751][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:32.754][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:32.756][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:32.759][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-24 21:39:32.760][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:32.762][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.790][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.820][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:32.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:32.828][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-24 21:39:32.830][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.830][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.836][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.843][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.847][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.848][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.849][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.850][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.852][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.853][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.855][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.866][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.869][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.872][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.877][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.885][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-24 21:39:32.886][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.887][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.904][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.905][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.906][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.906][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.907][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.908][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.909][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.916][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.917][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.918][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.919][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.921][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.922][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.936][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-24 21:39:32.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:32.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:32.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:32.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:32.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:32.945][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:32.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:32.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.956][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-24 21:39:32.957][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-24 21:39:32.958][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-24 21:39:32.959][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.960][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.961][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.964][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.965][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.969][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-24 21:39:32.970][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.971][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.974][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-24 21:39:32.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:32.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:32.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:32.987][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-24 21:39:32.988][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-24 21:39:32.989][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-24 21:39:33.007][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-24 21:39:33.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-24 21:39:33.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:33.014][biodb::testThat]
biodb.INFO [2025-10-24 21:39:33.015][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-24 21:39:33.016][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:33.017][biodb::testThat]
biodb.DEBUG[2025-10-24 21:39:33.024][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-24 21:39:33.025][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:33.027][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:33.030][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-24 21:39:33.031][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:33.032][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:33.033][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:33.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:33.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:33.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:33.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:33.046][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.047][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.054][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:33.055][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:33.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.057][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.058][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:33.059][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:33.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.061][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.062][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:33.063][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:33.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.065][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.066][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.067][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.069][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.070][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.071][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.073][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.074][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:33.076][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:33.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.077][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.079][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.080][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.082][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.083][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:33.084][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:33.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.086][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.087][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:33.088][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:33.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.090][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.091][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:33.093][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:33.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.095][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:33.136][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-24 21:39:33.137][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-24 21:39:33.145][biodb::testThat]
biodb.INFO [2025-10-24 21:39:33.146][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-24 21:39:33.147][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:33.148][biodb::testThat]
biodb.DEBUG[2025-10-24 21:39:33.156][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-24 21:39:33.157][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-24 21:39:33.158][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-24 21:39:33.160][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:33.162][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-24 21:39:33.166][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-24 21:39:33.170][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-24 21:39:33.171][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:33.172][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-24 21:39:33.173][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:33.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:33.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:33.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:33.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:33.191][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.192][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.200][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:33.201][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:33.201][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.202][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.204][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:33.205][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:33.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.208][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:33.209][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:33.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.211][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.216][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.217][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.220][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:33.221][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:33.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.223][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.224][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.225][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.227][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.229][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:33.230][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:33.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.231][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.233][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:33.234][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:33.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.237][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:33.238][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:33.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:33.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:33.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:33.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:33.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:33.282][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.284][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.286][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.291][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:33.292][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:33.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.294][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.296][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:33.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:33.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.299][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:33.301][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:33.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.304][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:33.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:33.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.308][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:33.309][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:33.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.311][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.312][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:33.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:33.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.316][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.317][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.319][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.324][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.325][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.329][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.333][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:33.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:33.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.337][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:33.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:33.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.341][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.342][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.355][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:33.356][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:33.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.358][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.359][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:33.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:33.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.363][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:33.364][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:33.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.366][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.367][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:33.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:33.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.371][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:33.372][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:33.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.375][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:33.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:33.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:33.407][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:33.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:33.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:33.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-24 21:39:33.418][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.419][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.421][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.427][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:33.428][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:33.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.429][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.431][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:33.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:33.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.435][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:33.436][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:33.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.439][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:33.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:33.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.443][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:33.444][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:33.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.446][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.448][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:33.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:33.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.452][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.453][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.455][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.456][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:33.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.460][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.461][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.463][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.464][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:33.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.468][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:33.469][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:33.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.471][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.472][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:33.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:33.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.476][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.477][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.479][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.484][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:33.485][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:33.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.487][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.489][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:33.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:33.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.493][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:33.494][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:33.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.496][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.498][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:33.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:33.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.502][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:33.503][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:33.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.510][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.512][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:33.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:33.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:33.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.539][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:33.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:33.579][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-24 21:39:33.580][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-24 21:39:33.581][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-24 21:39:33.593][biodb::testThat]
biodb.INFO [2025-10-24 21:39:33.594][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-24 21:39:33.595][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:33.596][biodb::testThat]
biodb.INFO [2025-10-24 21:39:33.620][biodb::testThat]
biodb.INFO [2025-10-24 21:39:33.621][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-24 21:39:33.622][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:33.623][biodb::testThat]
biodb.INFO [2025-10-24 21:39:33.631][biodb::testThat]
biodb.INFO [2025-10-24 21:39:33.632][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-24 21:39:33.633][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:33.633][biodb::testThat]
sched.DEBUG[2025-10-24 21:39:33.636][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:33.638][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:33.644][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-24 21:39:33.645][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-24 21:39:33.656][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:33.657][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:33.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.659][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:33.660][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.661][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:33.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:33.662][ef$get] fields variable is a list.
biodb.INFO [2025-10-24 21:39:33.664][biodb::testThat]
biodb.INFO [2025-10-24 21:39:33.670][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-24 21:39:33.671][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:33.672][biodb::testThat]
biodb.ERROR[2025-10-24 21:39:33.685][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-24 21:39:33.699][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-24 21:39:33.710][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-24 21:39:33.712][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-24 21:39:33.713][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-24 21:39:33.713][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:33.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:33.715][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.717][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-24 21:39:33.728][biodb::testContext]
biodb.INFO [2025-10-24 21:39:33.729][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-24 21:39:33.729][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-24 21:39:33.730][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-24 21:39:33.731][biodb::testContext]
biodb.INFO [2025-10-24 21:39:33.733][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-24 21:39:33.735][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-24 21:39:33.739][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:33.740][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-24 21:39:33.741][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-24 21:39:33.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.745][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-24 21:39:33.746][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-24 21:39:33.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.749][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-24 21:39:33.750][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-24 21:39:33.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.754][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-24 21:39:33.755][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-24 21:39:33.756][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-24 21:39:33.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.760][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-24 21:39:33.761][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-24 21:39:33.762][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-24 21:39:33.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.764][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.DEBUG[2025-10-24 21:39:33.765][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-24 21:39:33.766][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-24 21:39:33.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.770][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-24 21:39:33.771][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-24 21:39:33.772][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-24 21:39:33.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.775][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-24 21:39:33.776][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-24 21:39:33.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.780][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-24 21:39:33.781][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-24 21:39:33.782][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-24 21:39:33.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.785][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[2025-10-24 21:39:33.786][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-24 21:39:33.786][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-24 21:39:33.787][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-24 21:39:33.788][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-24 21:39:33.789][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-24 21:39:33.790][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-24 21:39:33.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.794][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-24 21:39:33.795][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-24 21:39:33.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.798][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-24 21:39:33.799][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-24 21:39:33.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.803][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-24 21:39:33.804][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-24 21:39:33.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.808][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-24 21:39:33.809][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-24 21:39:33.810][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-24 21:39:33.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.813][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-24 21:39:33.814][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-24 21:39:33.823][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-24 21:39:33.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.827][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-24 21:39:33.828][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-24 21:39:33.829][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-24 21:39:33.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.833][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-24 21:39:33.835][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.836][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-24 21:39:33.837][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.838][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:33.839][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.840][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.841][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.842][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.843][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-24 21:39:33.844][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:33.845][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.845][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-24 21:39:33.846][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:33.847][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.848][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.849][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:33.849][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:33.849][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:33.849][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-24 21:39:33.849][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-24 21:39:33.851][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:33.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:33.852][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:33.853][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:33.854][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:33.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:33.856][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.857][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.858][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:33.859][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:33.860][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.861][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.862][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-24 21:39:33.864][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.865][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-24 21:39:33.866][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.867][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:33.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.870][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.871][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.872][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-24 21:39:33.873][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:33.874][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.875][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-24 21:39:33.876][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:33.877][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.878][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.879][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:33.879][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:33.879][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:33.879][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-24 21:39:33.879][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-24 21:39:33.880][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:33.881][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:33.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:33.882][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:33.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:33.884][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:33.885][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.886][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.887][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:33.888][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:33.889][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.890][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.891][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-24 21:39:33.893][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.894][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-24 21:39:33.895][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.896][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:33.897][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.898][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.899][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.900][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.901][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-24 21:39:33.902][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:33.903][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.904][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-24 21:39:33.905][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:33.906][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.907][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.908][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.909][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:33.910][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:33.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:33.912][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:33.913][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:33.914][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:33.915][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.916][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.917][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:33.917][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:33.918][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.919][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.920][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-24 21:39:33.922][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.923][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-24 21:39:33.924][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.925][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:33.926][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.927][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.928][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.929][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.930][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-24 21:39:33.931][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:33.932][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.933][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-24 21:39:33.934][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:33.935][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.936][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:33.937][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.938][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:33.939][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:33.939][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:33.940][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:33.941][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:33.942][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:33.943][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:33.944][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.945][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:33.946][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:33.947][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:33.948][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:33.949][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:33.950][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.959][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[2025-10-24 21:39:33.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.973][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[2025-10-24 21:39:33.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.978][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.DEBUG[2025-10-24 21:39:33.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.982][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[2025-10-24 21:39:33.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.987][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:33.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:33.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:33.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:33.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:33.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.012][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[2025-10-24 21:39:34.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.027][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-24 21:39:34.028][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-24 21:39:34.030][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-24 21:39:34.031][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-24 21:39:34.033][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-24 21:39:34.034][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-24 21:39:34.036][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-24 21:39:34.037][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-24 21:39:34.039][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-24 21:39:34.040][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-24 21:39:34.041][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-24 21:39:34.043][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-24 21:39:34.044][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-24 21:39:34.045][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-24 21:39:34.047][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-24 21:39:34.048][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-24 21:39:34.050][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-24 21:39:34.051][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-24 21:39:34.053][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-24 21:39:34.054][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-24 21:39:34.055][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-24 21:39:34.057][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-24 21:39:34.058][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-24 21:39:34.059][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-24 21:39:34.061][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-24 21:39:34.062][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-24 21:39:34.064][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-24 21:39:34.065][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-24 21:39:34.066][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-24 21:39:34.068][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-24 21:39:34.069][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-24 21:39:34.070][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-24 21:39:34.072][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-24 21:39:34.073][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-24 21:39:34.074][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-24 21:39:34.076][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-24 21:39:34.077][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-24 21:39:34.078][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-24 21:39:34.080][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-24 21:39:34.081][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-24 21:39:34.082][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-24 21:39:34.084][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-24 21:39:34.085][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-24 21:39:34.086][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-24 21:39:34.088][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-24 21:39:34.089][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-24 21:39:34.091][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-24 21:39:34.092][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-24 21:39:34.093][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-24 21:39:34.095][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-24 21:39:34.096][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-24 21:39:34.097][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-24 21:39:34.099][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-24 21:39:34.100][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-24 21:39:34.101][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-24 21:39:34.103][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-24 21:39:34.104][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-24 21:39:34.105][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-24 21:39:34.107][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-24 21:39:34.108][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-24 21:39:34.109][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-24 21:39:34.111][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-24 21:39:34.112][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-24 21:39:34.113][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-24 21:39:34.120][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-24 21:39:34.122][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-24 21:39:34.123][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-24 21:39:34.125][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-24 21:39:34.126][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-24 21:39:34.128][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-24 21:39:34.129][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-24 21:39:34.130][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-24 21:39:34.132][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-24 21:39:34.133][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-24 21:39:34.134][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-24 21:39:34.135][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-24 21:39:34.137][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-24 21:39:34.138][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-24 21:39:34.139][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-24 21:39:34.141][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-24 21:39:34.142][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-24 21:39:34.143][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-24 21:39:34.145][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-24 21:39:34.146][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-24 21:39:34.147][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-24 21:39:34.149][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:34.149][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.151][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.158][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.DEBUG[2025-10-24 21:39:34.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.173][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.175][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.203][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.214][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[2025-10-24 21:39:34.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.219][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.229][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.231][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.239][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.DEBUG[2025-10-24 21:39:34.239][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.246][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.253][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-24 21:39:34.254][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-24 21:39:34.256][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.257][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.258][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.259][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:34.260][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.261][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.262][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.452][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-24 21:39:34.453][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-24 21:39:34.454][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:34.455][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.456][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-24 21:39:34.457][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-24 21:39:34.458][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-24 21:39:34.459][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.460][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:34.460][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:34.460][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:34.461][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-24 21:39:34.462][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.463][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:34.464][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.465][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.466][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.467][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-24 21:39:34.467][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-24 21:39:34.468][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:34.469][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:34.470][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.471][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-24 21:39:34.471][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-24 21:39:34.472][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-24 21:39:34.473][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-24 21:39:34.475][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-24 21:39:34.476][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-24 21:39:34.478][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-24 21:39:34.479][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-24 21:39:34.483][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-24 21:39:34.486][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-24 21:39:34.487][biodb::testThat]
biodb.INFO [2025-10-24 21:39:34.488][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-24 21:39:34.489][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:34.490][biodb::testThat]
sched.DEBUG[2025-10-24 21:39:34.493][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-24 21:39:34.495][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.501][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-24 21:39:34.502][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:34.505][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".
fscache.INFO [2025-10-24 21:39:34.507][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.509][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-24 21:39:34.510][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.521][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".
sched.DEBUG[2025-10-24 21:39:34.522][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".
fscache.INFO [2025-10-24 21:39:34.525][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.527][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-24 21:39:34.528][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:34.569][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".
fscache.INFO [2025-10-24 21:39:34.571][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.573][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-24 21:39:34.574][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.577][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.582][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.585][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".
sched.DEBUG[2025-10-24 21:39:34.587][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".
fscache.INFO [2025-10-24 21:39:34.589][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.591][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-24 21:39:34.592][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.599][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.600][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.601][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.603][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:34.615][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".
fscache.INFO [2025-10-24 21:39:34.617][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.619][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-24 21:39:34.620][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.629][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.630][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:34.632][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".
fscache.INFO [2025-10-24 21:39:34.635][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.636][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-24 21:39:34.637][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.645][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:34.649][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".
fscache.INFO [2025-10-24 21:39:34.652][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.654][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-24 21:39:34.655][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.665][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.665][FUN] Functions in observer BiodbConfig: [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 [2025-10-24 21:39:34.672][biodb::testThat]
biodb.INFO [2025-10-24 21:39:34.673][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-24 21:39:34.674][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:34.675][biodb::testThat]
sched.DEBUG[2025-10-24 21:39:34.679][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".
fscache.INFO [2025-10-24 21:39:34.682][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.684][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-24 21:39:34.685][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.687][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.688][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.689][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.694][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-24 21:39:34.701][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".
fscache.INFO [2025-10-24 21:39:34.704][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:34.711][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-24 21:39:34.712][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:34.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:34.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-24 21:39:34.727][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-24 21:39:34.729][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-24 21:39:34.729][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-24 21:39:34.730][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:34.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:34.732][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.734][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.735][FUN] Functions in observer BiodbConfig: [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 [2025-10-24 21:39:34.738][biodb::testContext]
biodb.INFO [2025-10-24 21:39:34.739][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-24 21:39:34.740][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-24 21:39:34.741][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-24 21:39:34.741][biodb::testContext]
biodb.INFO [2025-10-24 21:39:34.743][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-24 21:39:34.745][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-24 21:39:34.749][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:34.750][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-24 21:39:34.751][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-24 21:39:34.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.754][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-24 21:39:34.755][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-24 21:39:34.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.758][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-24 21:39:34.759][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-24 21:39:34.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.763][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-24 21:39:34.764][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-24 21:39:34.765][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-24 21:39:34.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.768][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-24 21:39:34.769][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-24 21:39:34.770][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-24 21:39:34.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.773][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-24 21:39:34.774][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-24 21:39:34.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.777][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[2025-10-24 21:39:34.778][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-24 21:39:34.779][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-24 21:39:34.780][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-24 21:39:34.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.783][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-24 21:39:34.784][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-24 21:39:34.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.788][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-24 21:39:34.789][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-24 21:39:34.790][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-24 21:39:34.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.793][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-24 21:39:34.794][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-24 21:39:34.795][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-24 21:39:34.796][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-24 21:39:34.797][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-24 21:39:34.798][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-24 21:39:34.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.802][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-24 21:39:34.803][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-24 21:39:34.803][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.806][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-24 21:39:34.807][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-24 21:39:34.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.811][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-24 21:39:34.812][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-24 21:39:34.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.815][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-24 21:39:34.816][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-24 21:39:34.817][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-24 21:39:34.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.820][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-24 21:39:34.821][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-24 21:39:34.825][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-24 21:39:34.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.829][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-24 21:39:34.830][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-24 21:39:34.831][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-24 21:39:34.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.834][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-24 21:39:34.836][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.837][self$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[2025-10-24 21:39:34.838][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.839][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:34.840][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.841][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.842][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.843][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.844][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-24 21:39:34.844][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:34.845][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.846][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-24 21:39:34.847][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:34.848][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.849][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.850][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:34.850][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:34.850][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:34.850][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-24 21:39:34.850][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-24 21:39:34.851][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:34.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.854][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:34.855][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.857][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.858][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:34.859][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:34.860][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.861][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.862][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-24 21:39:34.864][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.865][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-24 21:39:34.866][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.867][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:34.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.870][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.871][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.872][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-24 21:39:34.873][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:34.874][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.875][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-24 21:39:34.876][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:34.877][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.878][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.879][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:34.879][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:34.879][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:34.879][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-24 21:39:34.879][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-24 21:39:34.880][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:34.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.882][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:34.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.884][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.885][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.886][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.887][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:34.888][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:34.889][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.890][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.891][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-24 21:39:34.892][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.893][self$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[2025-10-24 21:39:34.894][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.895][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:34.896][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.897][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.898][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.899][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.900][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-24 21:39:34.901][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:34.902][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.903][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-24 21:39:34.904][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:34.905][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.906][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.907][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.908][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:34.909][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.910][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.911][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:34.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.913][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.914][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.915][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:34.916][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:34.917][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.918][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.919][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-24 21:39:34.921][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.922][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-24 21:39:34.923][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.924][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:34.925][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.926][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.927][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.928][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.929][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-24 21:39:34.930][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:34.930][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.931][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-24 21:39:34.932][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:34.933][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.934][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:34.935][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.936][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:34.937][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.938][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.939][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:34.940][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:34.941][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:34.942][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:34.943][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.944][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:34.945][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:34.946][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:34.947][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:34.948][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:34.949][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.965][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[2025-10-24 21:39:34.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.975][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[2025-10-24 21:39:34.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.979][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[2025-10-24 21:39:34.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:34.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.994][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[2025-10-24 21:39:34.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:34.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:34.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:34.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:34.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.012][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[2025-10-24 21:39:35.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.016][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[2025-10-24 21:39:35.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.021][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.023][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.029][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-24 21:39:35.031][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-24 21:39:35.032][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-24 21:39:35.033][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-24 21:39:35.035][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-24 21:39:35.036][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-24 21:39:35.037][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-24 21:39:35.039][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-24 21:39:35.040][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-24 21:39:35.041][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-24 21:39:35.043][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-24 21:39:35.044][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-24 21:39:35.045][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-24 21:39:35.047][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-24 21:39:35.048][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-24 21:39:35.049][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-24 21:39:35.051][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-24 21:39:35.052][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-24 21:39:35.053][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-24 21:39:35.055][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-24 21:39:35.056][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-24 21:39:35.057][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-24 21:39:35.058][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-24 21:39:35.060][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-24 21:39:35.061][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-24 21:39:35.063][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-24 21:39:35.064][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-24 21:39:35.065][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-24 21:39:35.067][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-24 21:39:35.068][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-24 21:39:35.069][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-24 21:39:35.071][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-24 21:39:35.072][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-24 21:39:35.073][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-24 21:39:35.075][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-24 21:39:35.076][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-24 21:39:35.077][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-24 21:39:35.079][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-24 21:39:35.080][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-24 21:39:35.081][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-24 21:39:35.083][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-24 21:39:35.084][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-24 21:39:35.085][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-24 21:39:35.087][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-24 21:39:35.088][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-24 21:39:35.089][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-24 21:39:35.091][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-24 21:39:35.092][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-24 21:39:35.093][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-24 21:39:35.095][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-24 21:39:35.096][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-24 21:39:35.097][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-24 21:39:35.099][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-24 21:39:35.100][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-24 21:39:35.101][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-24 21:39:35.102][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-24 21:39:35.104][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-24 21:39:35.105][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-24 21:39:35.106][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-24 21:39:35.108][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-24 21:39:35.109][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-24 21:39:35.110][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-24 21:39:35.111][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-24 21:39:35.113][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-24 21:39:35.114][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-24 21:39:35.115][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-24 21:39:35.117][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-24 21:39:35.118][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-24 21:39:35.119][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-24 21:39:35.120][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-24 21:39:35.122][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-24 21:39:35.123][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-24 21:39:35.124][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-24 21:39:35.126][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-24 21:39:35.127][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-24 21:39:35.128][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-24 21:39:35.130][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-24 21:39:35.131][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-24 21:39:35.132][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-24 21:39:35.134][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-24 21:39:35.135][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-24 21:39:35.136][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-24 21:39:35.137][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-24 21:39:35.139][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-24 21:39:35.140][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-24 21:39:35.141][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:35.142][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.144][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.145][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.DEBUG[2025-10-24 21:39:35.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.175][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[2025-10-24 21:39:35.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.192][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.DEBUG[2025-10-24 21:39:35.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.217][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.218][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.222][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[2025-10-24 21:39:35.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.234][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.239][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.DEBUG[2025-10-24 21:39:35.241][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-24 21:39:35.242][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-24 21:39:35.244][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.245][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.246][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.247][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:35.248][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.249][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.250][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.251][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-24 21:39:35.252][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-24 21:39:35.253][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:35.254][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.254][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-24 21:39:35.255][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-24 21:39:35.256][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-24 21:39:35.257][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.258][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:35.258][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:35.258][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:35.259][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-24 21:39:35.260][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.261][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.262][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:35.263][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.264][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.265][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.266][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-24 21:39:35.266][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-24 21:39:35.267][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:35.267][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:35.268][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.269][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-24 21:39:35.269][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-24 21:39:35.270][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-24 21:39:35.272][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-24 21:39:35.279][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-24 21:39:35.280][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-24 21:39:35.281][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-24 21:39:35.283][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-24 21:39:35.286][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-24 21:39:35.289][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-24 21:39:35.290][biodb::testThat]
biodb.INFO [2025-10-24 21:39:35.291][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-24 21:39:35.292][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:35.293][biodb::testThat]
sched.DEBUG[2025-10-24 21:39:35.295][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-24 21:39:35.297][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:35.302][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-24 21:39:35.303][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:35.307][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-24 21:39:35.309][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:35.311][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-24 21:39:35.312][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-24 21:39:35.319][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-24 21:39:35.320][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-24 21:39:35.321][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-24 21:39:35.321][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.322][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.323][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.325][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-24 21:39:35.329][biodb::testContext]
biodb.INFO [2025-10-24 21:39:35.330][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-24 21:39:35.331][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-24 21:39:35.331][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-24 21:39:35.332][biodb::testContext]
biodb.INFO [2025-10-24 21:39:35.334][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-24 21:39:35.336][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-24 21:39:35.339][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:35.340][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-24 21:39:35.341][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-24 21:39:35.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.345][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-24 21:39:35.346][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-24 21:39:35.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.349][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-24 21:39:35.350][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-24 21:39:35.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.354][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-24 21:39:35.354][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-24 21:39:35.355][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-24 21:39:35.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.359][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-24 21:39:35.360][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-24 21:39:35.361][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-24 21:39:35.362][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.364][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-24 21:39:35.365][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-24 21:39:35.366][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.369][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-24 21:39:35.370][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-24 21:39:35.371][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-24 21:39:35.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.374][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-24 21:39:35.375][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-24 21:39:35.376][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.379][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-24 21:39:35.379][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-24 21:39:35.380][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-24 21:39:35.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.383][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.384][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-24 21:39:35.385][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-24 21:39:35.386][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-24 21:39:35.387][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-24 21:39:35.388][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-24 21:39:35.389][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-24 21:39:35.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.392][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-24 21:39:35.393][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-24 21:39:35.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.396][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-24 21:39:35.397][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-24 21:39:35.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.401][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-24 21:39:35.402][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-24 21:39:35.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.404][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[2025-10-24 21:39:35.405][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-24 21:39:35.406][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-24 21:39:35.407][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-24 21:39:35.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.410][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-24 21:39:35.411][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-24 21:39:35.414][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-24 21:39:35.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.418][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-24 21:39:35.419][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-24 21:39:35.420][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-24 21:39:35.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.423][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-24 21:39:35.425][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.426][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-24 21:39:35.427][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.428][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:35.429][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.430][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.430][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.431][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.432][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-24 21:39:35.433][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:35.434][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.435][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-24 21:39:35.436][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:35.437][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.438][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.439][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:35.439][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:35.439][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:35.439][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-24 21:39:35.439][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-24 21:39:35.440][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:35.441][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.442][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.443][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:35.444][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.445][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.445][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.446][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.447][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:35.448][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:35.449][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.450][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.451][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-24 21:39:35.453][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.454][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-24 21:39:35.455][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.456][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:35.457][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.458][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.458][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.459][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.460][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-24 21:39:35.461][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:35.462][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.463][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-24 21:39:35.464][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:35.465][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.466][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.467][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:35.467][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:35.467][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:35.467][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-24 21:39:35.467][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-24 21:39:35.468][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:35.469][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.471][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:35.471][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.472][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.473][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.474][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.475][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:35.476][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:35.477][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.478][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.479][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-24 21:39:35.480][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.481][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-24 21:39:35.482][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.483][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:35.484][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.485][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.486][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.487][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.488][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-24 21:39:35.489][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:35.490][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.491][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-24 21:39:35.492][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:35.493][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.494][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.495][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.495][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:35.496][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.497][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.498][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:35.499][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.500][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.501][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.502][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.503][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:35.503][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:35.504][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.505][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.506][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-24 21:39:35.508][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.509][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-24 21:39:35.510][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.511][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:35.512][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.513][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.514][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.515][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.516][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-24 21:39:35.517][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:35.518][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.519][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-24 21:39:35.520][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:35.521][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.522][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.523][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.524][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-24 21:39:35.525][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.525][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.526][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:35.527][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.528][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.529][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.530][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.531][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:35.532][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:35.533][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.534][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-24 21:39:35.535][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:35.536][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.536][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[2025-10-24 21:39:35.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.545][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[2025-10-24 21:39:35.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.548][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.549][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[2025-10-24 21:39:35.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.571][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[2025-10-24 21:39:35.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.592][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[2025-10-24 21:39:35.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.596][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[2025-10-24 21:39:35.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.601][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.604][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[2025-10-24 21:39:35.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.609][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-24 21:39:35.610][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-24 21:39:35.612][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-24 21:39:35.613][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-24 21:39:35.614][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-24 21:39:35.615][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-24 21:39:35.617][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-24 21:39:35.618][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-24 21:39:35.619][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-24 21:39:35.621][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-24 21:39:35.622][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-24 21:39:35.623][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-24 21:39:35.625][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-24 21:39:35.626][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-24 21:39:35.627][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-24 21:39:35.629][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-24 21:39:35.630][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-24 21:39:35.631][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-24 21:39:35.633][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-24 21:39:35.634][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-24 21:39:35.635][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-24 21:39:35.636][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-24 21:39:35.638][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-24 21:39:35.639][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-24 21:39:35.640][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-24 21:39:35.642][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-24 21:39:35.643][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-24 21:39:35.644][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-24 21:39:35.646][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-24 21:39:35.647][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-24 21:39:35.648][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-24 21:39:35.649][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-24 21:39:35.651][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-24 21:39:35.652][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-24 21:39:35.653][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-24 21:39:35.655][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-24 21:39:35.656][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-24 21:39:35.657][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-24 21:39:35.659][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-24 21:39:35.660][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-24 21:39:35.661][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-24 21:39:35.662][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-24 21:39:35.664][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-24 21:39:35.665][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-24 21:39:35.666][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-24 21:39:35.668][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-24 21:39:35.669][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-24 21:39:35.670][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-24 21:39:35.671][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-24 21:39:35.673][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-24 21:39:35.674][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-24 21:39:35.675][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-24 21:39:35.676][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-24 21:39:35.678][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-24 21:39:35.679][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-24 21:39:35.680][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-24 21:39:35.682][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-24 21:39:35.683][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-24 21:39:35.684][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-24 21:39:35.685][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-24 21:39:35.687][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-24 21:39:35.688][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-24 21:39:35.689][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-24 21:39:35.691][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-24 21:39:35.692][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-24 21:39:35.693][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-24 21:39:35.694][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-24 21:39:35.696][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-24 21:39:35.697][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-24 21:39:35.698][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-24 21:39:35.700][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-24 21:39:35.701][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-24 21:39:35.702][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-24 21:39:35.704][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-24 21:39:35.705][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-24 21:39:35.706][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-24 21:39:35.708][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-24 21:39:35.709][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-24 21:39:35.710][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-24 21:39:35.712][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-24 21:39:35.713][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-24 21:39:35.714][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-24 21:39:35.716][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-24 21:39:35.717][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-24 21:39:35.719][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-24 21:39:35.720][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-24 21:39:35.721][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.722][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.749][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.764][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.DEBUG[2025-10-24 21:39:35.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.778][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.782][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.DEBUG[2025-10-24 21:39:35.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.788][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.799][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[2025-10-24 21:39:35.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-24 21:39:35.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.811][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[2025-10-24 21:39:35.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-24 21:39:35.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.817][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[2025-10-24 21:39:35.819][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-24 21:39:35.820][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-24 21:39:35.822][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.823][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.824][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.824][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-24 21:39:35.825][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.826][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.827][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.833][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-24 21:39:35.834][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-24 21:39:35.835][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-24 21:39:35.836][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.837][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-24 21:39:35.838][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-24 21:39:35.839][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-24 21:39:35.840][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-24 21:39:35.841][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-24 21:39:35.841][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-24 21:39:35.841][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-24 21:39:35.842][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-24 21:39:35.843][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.843][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.844][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-24 21:39:35.845][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-24 21:39:35.846][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-24 21:39:35.847][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-24 21:39:35.848][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-24 21:39:35.848][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-24 21:39:35.849][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-24 21:39:35.850][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-24 21:39:35.850][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-24 21:39:35.851][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-24 21:39:35.851][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-24 21:39:35.853][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-24 21:39:35.854][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-24 21:39:35.856][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-24 21:39:35.857][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-24 21:39:35.858][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-24 21:39:35.860][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-24 21:39:35.863][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-24 21:39:35.866][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-24 21:39:35.867][biodb::testThat]
biodb.INFO [2025-10-24 21:39:35.868][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-24 21:39:35.869][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-24 21:39:35.869][biodb::testThat]
sched.DEBUG[2025-10-24 21:39:35.872][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-24 21:39:35.874][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:35.879][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-24 21:39:35.880][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-24 21:39:35.883][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".
fscache.INFO [2025-10-24 21:39:35.886][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-24 21:39:35.887][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-24 21:39:35.888][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-24 21:39:35.892][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-24 21:39:35.894][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-24 21:39:35.896][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-24 21:39:35.904][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-24 21:39:35.906][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-24 21:39:35.907][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-24 21:39:35.908][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-24 21:39:35.910][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-24 21:39:35.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:35.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:35.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:35.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:35.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:35.918][FUN] Functions in observer BiodbConfig: [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[2025-10-24 21:39:35.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:35.923][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:35.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.925][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:35.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:35.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.930][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:35.931][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:35.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.933][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.934][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-24 21:39:35.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-24 21:39:35.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.938][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:35.939][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:35.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.941][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.943][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-24 21:39:35.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-24 21:39:35.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.946][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-24 21:39:35.947][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-24 21:39:35.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.951][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-24 21:39:35.952][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-24 21:39:35.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.955][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:35.956][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:35.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.959][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:35.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-24 21:39:35.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.963][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:35.964][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:35.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.966][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.967][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-24 21:39:35.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-24 21:39:35.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.971][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:35.972][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:35.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:35.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-24 21:39:35.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.979][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:35.980][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:35.981][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.983][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-24 21:39:35.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-24 21:39:35.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.987][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:35.988][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:35.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.990][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.991][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-24 21:39:35.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-24 21:39:35.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:35.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:35.996][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:35.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:35.998][ef$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.000][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-24 21:39:36.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-24 21:39:36.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:36.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:36.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:36.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:36.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:36.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:36.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-24 21:39:36.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-24 21:39:36.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:36.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:36.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:36.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:36.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:36.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:36.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:36.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:36.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:36.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:36.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-24 21:39:36.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-24 21:39:36.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-24 21:39:36.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-24 21:39:36.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-24 21:39:36.041][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-24 21:39:36.045][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-24 21:39:36.046][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-24 21:39:36.047][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-24 21:39:36.048][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-24 21:39:36.048][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-24 21:39:36.049][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-24 21:39:36.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-24 21:39:36.051][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-24 21:39:36.052][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 15.137   0.398  16.692

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.5540.0790.636
ChebiEntry0.1410.0030.144