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This page was generated on 2025-10-09 12:05 -0400 (Thu, 09 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4854
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4642
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4587
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4584
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 208/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-08 14:17 -0400 (Wed, 08 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    ERROR  
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    ERROR    OK  
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    ERROR    OK  
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on kjohnson3

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: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-10-08 18:33:17 -0400 (Wed, 08 Oct 2025)
EndedAt: 2025-10-08 18:33:45 -0400 (Wed, 08 Oct 2025)
EllapsedTime: 28.3 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings biodbChebi_1.15.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-09-10 r88807)
* using platform: aarch64-apple-darwin20
* R was compiled by
    Apple clang version 16.0.0 (clang-1600.0.26.6)
    GNU Fortran (GCC) 14.2.0
* running under: macOS Ventura 13.7.7
* using session charset: UTF-8
* using option ‘--no-vignettes’
* 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 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’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
   3.   └─testthat::expect_true(!is.na(content))
  ── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
  nchar(content) > 0 is not TRUE
  
  `actual`:       
  `expected`: TRUE
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
   3.   └─testthat::expect_true(nchar(content) > 0)
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
  Error: Test failures
  Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR
See
  ‘/Users/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck/00check.log’
for details.

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/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.fail


R version 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-apple-darwin20

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 [2025-10-08 18:33:36.816][biodb::testContext]
biodb.INFO [2025-10-08 18:33:36.817][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-08 18:33:36.817][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-08 18:33:36.818][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-08 18:33:36.818][biodb::testContext]
biodb.INFO [2025-10-08 18:33:36.821][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-08 18:33:36.821][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-08 18:33:36.824][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:36.825][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-08 18:33:36.825][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-08 18:33:36.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.826][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-08 18:33:36.832][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-08 18:33:36.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.833][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[2025-10-08 18:33:36.833][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-08 18:33:36.833][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-08 18:33:36.834][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.834][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-08 18:33:36.835][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-08 18:33:36.835][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-08 18:33:36.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.836][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-08 18:33:36.836][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-08 18:33:36.837][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-08 18:33:36.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.838][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-08 18:33:36.838][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-08 18:33:36.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.839][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-08 18:33:36.839][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-08 18:33:36.840][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-08 18:33:36.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.841][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-08 18:33:36.841][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-08 18:33:36.841][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.842][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[2025-10-08 18:33:36.842][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-08 18:33:36.846][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-08 18:33:36.847][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-08 18:33:36.847][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.848][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-08 18:33:36.848][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-08 18:33:36.848][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-08 18:33:36.848][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-08 18:33:36.849][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-08 18:33:36.849][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-08 18:33:36.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.850][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-08 18:33:36.850][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-08 18:33:36.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.851][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-08 18:33:36.852][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-08 18:33:36.852][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.852][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-08 18:33:36.853][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-08 18:33:36.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.854][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-08 18:33:36.854][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-08 18:33:36.854][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-08 18:33:36.854][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.855][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-08 18:33:36.855][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-08 18:33:36.861][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-08 18:33:36.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.863][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-08 18:33:36.863][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-08 18:33:36.863][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-08 18:33:36.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.865][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-08 18:33:36.877][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.881][self$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[2025-10-08 18:33:36.882][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.882][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:36.882][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.883][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.883][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.883][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.883][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-08 18:33:36.884][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:36.884][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.884][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-08 18:33:36.884][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:36.885][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.885][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.885][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:36.885][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:36.885][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:36.885][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-08 18:33:36.885][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-08 18:33:36.886][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:36.886][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:36.886][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:36.886][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:36.887][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:36.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:36.887][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.887][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.888][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:36.888][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:36.888][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.888][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.889][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-08 18:33:36.889][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.890][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-08 18:33:36.890][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.890][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:36.890][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.891][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.891][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.891][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.892][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-08 18:33:36.892][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:36.892][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.892][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-08 18:33:36.893][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:36.893][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.893][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.893][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:36.893][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:36.893][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:36.893][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-08 18:33:36.893][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-08 18:33:36.894][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:36.894][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:36.894][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:36.894][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:36.895][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:36.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:36.895][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.895][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.896][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:36.896][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:36.896][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.896][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.897][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-08 18:33:36.897][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.898][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-08 18:33:36.898][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.898][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:36.898][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.899][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.899][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.899][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.899][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-08 18:33:36.900][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:36.900][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.900][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-08 18:33:36.900][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:36.903][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.903][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.904][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.904][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:36.904][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:36.904][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:36.905][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:36.905][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:36.905][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:36.906][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.906][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.906][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:36.906][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:36.907][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.907][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.907][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-08 18:33:36.908][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.908][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-08 18:33:36.908][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.908][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:36.909][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.909][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.909][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.910][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.910][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-08 18:33:36.910][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:36.910][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.911][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-08 18:33:36.911][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:36.911][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.911][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:36.912][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.912][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:36.912][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:36.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:36.913][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:36.913][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:36.913][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:36.913][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:36.914][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.914][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:36.914][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:36.914][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:36.915][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:36.916][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:36.916][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.918][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.DEBUG[2025-10-08 18:33:36.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.922][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.924][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.925][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.927][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.928][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[2025-10-08 18:33:36.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.934][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.938][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-08 18:33:36.940][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-08 18:33:36.940][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-08 18:33:36.941][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-08 18:33:36.941][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-08 18:33:36.942][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-08 18:33:36.942][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-08 18:33:36.942][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-08 18:33:36.943][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-08 18:33:36.943][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-08 18:33:36.944][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-08 18:33:36.944][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-08 18:33:36.944][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-08 18:33:36.945][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-08 18:33:36.945][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-08 18:33:36.945][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-08 18:33:36.946][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-08 18:33:36.946][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-08 18:33:36.946][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-08 18:33:36.947][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-08 18:33:36.947][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-08 18:33:36.948][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-08 18:33:36.948][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-08 18:33:36.948][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-08 18:33:36.949][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-08 18:33:36.949][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-08 18:33:36.949][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-08 18:33:36.950][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-08 18:33:36.950][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-08 18:33:36.951][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-08 18:33:36.951][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-08 18:33:36.951][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-08 18:33:36.952][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-08 18:33:36.952][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-08 18:33:36.955][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-08 18:33:36.956][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-08 18:33:36.956][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-08 18:33:36.956][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-08 18:33:36.957][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-08 18:33:36.957][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-08 18:33:36.957][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-08 18:33:36.958][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-08 18:33:36.958][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-08 18:33:36.959][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-08 18:33:36.959][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-08 18:33:36.959][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-08 18:33:36.960][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-08 18:33:36.960][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-08 18:33:36.961][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-08 18:33:36.961][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-08 18:33:36.961][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-08 18:33:36.962][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-08 18:33:36.962][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-08 18:33:36.962][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-08 18:33:36.963][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-08 18:33:36.963][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-08 18:33:36.964][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-08 18:33:36.964][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-08 18:33:36.964][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-08 18:33:36.965][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-08 18:33:36.965][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-08 18:33:36.966][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-08 18:33:36.966][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-08 18:33:36.966][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-08 18:33:36.967][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-08 18:33:36.967][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-08 18:33:36.967][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-08 18:33:36.968][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-08 18:33:36.968][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-08 18:33:36.968][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-08 18:33:36.969][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-08 18:33:36.969][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-08 18:33:36.970][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-08 18:33:36.970][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-08 18:33:36.970][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-08 18:33:36.971][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-08 18:33:36.971][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-08 18:33:36.972][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-08 18:33:36.972][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-08 18:33:36.972][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-08 18:33:36.973][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-08 18:33:36.973][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-08 18:33:36.973][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-08 18:33:36.975][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-08 18:33:36.976][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-08 18:33:36.977][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:36.978][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.978][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.978][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[2025-10-08 18:33:36.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.986][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[2025-10-08 18:33:36.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.989][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[2025-10-08 18:33:36.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.994][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[2025-10-08 18:33:36.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.995][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:36.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:36.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:36.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:36.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:36.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:36.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:36.999][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[2025-10-08 18:33:37.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:37.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:37.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:37.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:37.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:37.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:37.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:37.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:37.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:37.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:37.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:37.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:37.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:37.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:37.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:37.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:37.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:37.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:37.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:37.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:37.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:37.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:37.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:37.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:37.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:37.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:37.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:37.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:37.010][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-08 18:33:37.013][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-08 18:33:37.014][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:37.014][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-08 18:33:37.014][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:37.015][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:37.015][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:37.015][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:37.016][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:37.016][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-08 18:33:37.016][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-08 18:33:37.016][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:37.017][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:37.017][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-08 18:33:37.017][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:37.018][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-08 18:33:37.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:37.019][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:37.019][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:37.019][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:37.020][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:37.020][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:37.020][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-08 18:33:37.020][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-08 18:33:37.020][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:37.021][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:37.021][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:37.021][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-08 18:33:37.021][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-08 18:33:37.023][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-08 18:33:37.024][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-08 18:33:37.024][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-08 18:33:37.025][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-08 18:33:37.025][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-08 18:33:37.026][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-08 18:33:37.037][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-08 18:33:37.044][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-08 18:33:37.048][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.048][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-08 18:33:37.049][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:37.049][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:37.051][loadFileContents] Loaded 1 files from cache: [1]: "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-08 18:33:37.052][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:37.053][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:37.056][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:37.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:37.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:37.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:37.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:37.063][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:37.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:37.067][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.067][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.078][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.078][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.079][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.087][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.089][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.089][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.089][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.090][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.091][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.091][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.092][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.093][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.094][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.094][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.094][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.095][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.096][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.096][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.097][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.098][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:37.098][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.098][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.099][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:37.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.100][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.100][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.101][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.102][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.102][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.103][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.105][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:37.105][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.105][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.106][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:37.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.107][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.107][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.108][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.108][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.130][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.132][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:37.133][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-08 18:33:37.135][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.136][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.145][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.149][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.150][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.152][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-08 18:33:37.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-08 18:33:37.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.175][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-08 18:33:37.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-08 18:33:37.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.186][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.204][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.205][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.213][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.214][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.214][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.218][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.219][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.223][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.224][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.224][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.225][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.229][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.230][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.231][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.232][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.232][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.233][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.233][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.239][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.240][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.241][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.241][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.248][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.249][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.249][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.249][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.253][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.254][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.255][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.256][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.257][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.257][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.257][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.261][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.264][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.265][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.267][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.267][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.267][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.268][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.271][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.272][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.273][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.274][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.275][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.275][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.275][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.279][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.280][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.281][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.282][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.282][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.290][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.291][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.292][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.292][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.293][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.293][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.298][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.300][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.301][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.301][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.307][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.308][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.310][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.310][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.311][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.312][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.313][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.313][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.315][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.315][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.316][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.317][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.317][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.319][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.320][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.320][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.322][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.322][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.323][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.324][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.324][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.325][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.326][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.327][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.329][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.329][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.329][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.331][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.331][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.332][ef$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:37.334][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.335][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-08 18:33:37.335][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:37.335][biodb::testThat]
biodb.DEBUG[2025-10-08 18:33:37.340][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-08 18:33:37.342][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:37.343][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:37.345][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-08 18:33:37.346][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:37.356][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:37.356][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:37.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:37.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:37.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:37.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:37.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:37.360][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:37.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:37.361][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.361][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.362][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.368][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.369][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.370][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:37.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:37.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.371][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.371][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.372][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:37.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:37.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.373][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.373][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.374][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.375][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.376][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.376][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.376][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.378][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.378][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.378][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.379][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:37.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.380][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:37.380][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.381][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.381][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:37.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.382][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.382][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.383][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.384][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.384][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.386][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:37.387][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.387][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.388][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:37.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:37.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.389][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.389][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.390][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:37.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:37.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.396][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:37.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.402][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:37.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:37.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:37.404][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-08 18:33:37.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-08 18:33:37.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-08 18:33:37.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.405][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-08 18:33:37.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-08 18:33:37.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-08 18:33:37.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-08 18:33:37.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:37.410][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.410][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-08 18:33:37.411][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:37.411][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:37.412][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.412][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.413][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:37.413][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-08 18:33:37.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.424][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:37.426][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-08 18:33:37.428][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-08 18:33:37.437][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:37.439][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-08 18:33:37.439][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:37.445][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 [2025-10-08 18:33:37.455][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:37.457][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-08 18:33:37.457][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:37.458][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-08 18:33:37.462][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.462][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:37.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.463][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.463][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.463][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.464][ef$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:37.466][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.466][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-08 18:33:37.466][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:37.466][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:37.475][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.479][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:37.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:37.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:37.500][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 [2025-10-08 18:33:37.501][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:37.502][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-08 18:33:37.502][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-08 18:33:37.508][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.508][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-08 18:33:37.509][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:37.509][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:37.516][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.517][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.522][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.523][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.526][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.527][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.528][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-08 18:33:37.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-08 18:33:37.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.529][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-08 18:33:37.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-08 18:33:37.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.537][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:37.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:37.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.540][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:37.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:37.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.543][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.544][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-08 18:33:37.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.545][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-08 18:33:37.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-08 18:33:37.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:37.546][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-08 18:33:37.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-08 18:33:37.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:37.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:37.550][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.550][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-08 18:33:37.551][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:37.551][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.554][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.555][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-08 18:33:37.555][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:37.555][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.558][biodb::testThat]
biodb.INFO [2025-10-08 18:33:37.558][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-08 18:33:37.558][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:37.559][biodb::testThat]
biodb.DEBUG[2025-10-08 18:33:37.560][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-08 18:33:38.153][does_rcurl_request_url_exist] According to RCurl, URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440 does not exist.
sched.TRACE[2025-10-08 18:33:38.153][sched::get_url_request_result] Using base::url() for sending request.
sched.DEBUG[2025-10-08 18:33:38.154][sched::get_url_request_result] URL "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440" does not exist according to RCurl. That may happen with some protocol misunderstanding. Trying with base::url().
sched.TRACE[2025-10-08 18:33:38.157][get_base_url_request_result] Using base::url() for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-08 18:33:38.802][biodb::testThat]
biodb.INFO [2025-10-08 18:33:38.802][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-08 18:33:38.802][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:38.803][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:38.805][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:38.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:38.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.806][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:38.806][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:38.806][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:38.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.807][ef$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:38.807][biodb::testThat]
biodb.INFO [2025-10-08 18:33:38.808][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-08 18:33:38.808][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:38.808][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:38.812][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:38.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:38.813][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:38.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:38.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:38.814][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:38.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:38.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:38.852][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 [2025-10-08 18:33:38.853][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:38.854][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-08 18:33:38.855][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:38.960][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 [2025-10-08 18:33:38.961][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:38.962][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-08 18:33:38.962][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-08 18:33:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-08 18:33:38.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-08 18:33:38.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:38.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:38.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:38.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:38.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:38.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:38.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:38.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:38.979][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 [2025-10-08 18:33:38.980][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:38.983][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-08 18:33:38.983][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:38.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:38.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:38.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:38.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:38.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:38.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:38.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:38.988][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-08 18:33:39.004][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.005][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.006][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-08 18:33:39.007][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.007][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.007][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.012][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.013][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.014][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.015][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.016][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.016][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.017][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.018][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.018][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.019][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.021][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.021][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.021][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.022][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.023][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.024][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.024][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.025][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.026][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.026][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.027][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.027][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.027][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.028][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.028][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.029][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.030][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.030][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.032][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.032][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.034][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.035][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.035][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.036][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.037][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.037][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.038][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.051][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-08 18:33:39.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.057][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:39.058][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:39.062][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:39.063][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-08 18:33:39.063][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.068][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.075][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.075][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.078][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-08 18:33:39.079][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.079][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.080][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-08 18:33:39.081][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.081][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.081][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.082][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.085][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.086][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.086][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.088][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.088][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.088][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.089][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.090][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.090][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.091][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.091][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.092][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.092][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.093][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.093][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.094][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.095][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.095][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.096][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.097][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.097][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.098][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.098][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.098][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.099][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.100][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.100][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.102][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.102][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.103][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.104][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.104][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.105][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.105][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.106][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.106][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.107][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.107][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.118][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.119][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-08 18:33:39.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:39.129][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 [2025-10-08 18:33:39.130][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:39.131][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-08 18:33:39.131][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.134][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.135][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.142][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-08 18:33:39.142][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.142][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.144][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-08 18:33:39.144][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.145][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.145][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.148][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.149][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.149][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.150][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.151][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.151][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.152][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.152][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.153][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.153][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.153][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.154][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.154][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.154][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.155][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.155][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.155][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.156][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.156][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.156][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.157][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.157][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.157][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.158][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.158][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.158][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.159][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.159][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.159][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.160][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.161][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.161][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.162][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.163][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.163][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.166][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.168][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.170][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.176][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-08 18:33:39.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.184][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-08 18:33:39.184][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.184][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.186][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-08 18:33:39.186][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.186][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.187][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.190][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.191][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.192][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.193][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.193][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.193][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.194][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.194][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.195][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.195][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.195][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.196][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.196][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.197][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.197][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.197][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.198][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.198][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.199][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.199][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.199][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.200][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.200][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.201][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.202][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.202][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.202][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.203][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.204][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.204][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.204][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.214][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-08 18:33:39.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.217][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.219][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.220][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.222][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[2025-10-08 18:33:39.222][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-08 18:33:39.223][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.223][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.225][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-08 18:33:39.225][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.225][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.226][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.230][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[2025-10-08 18:33:39.230][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.231][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.231][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.233][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.233][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.234][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.234][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.234][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.235][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.235][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.235][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.236][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.237][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.238][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.238][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.238][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.239][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.240][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.241][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.241][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.241][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.242][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.243][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.243][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.244][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.244][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.245][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.246][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.246][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.247][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.248][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.251][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.257][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-08 18:33:39.257][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.260][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.265][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.266][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-08 18:33:39.266][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.266][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.268][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-08 18:33:39.269][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.269][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.270][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.273][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.274][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.274][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.275][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.276][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.277][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.277][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.278][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.279][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.279][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.279][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.280][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.281][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.281][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.285][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.286][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.286][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.286][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.288][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.288][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.289][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.290][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.290][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.291][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.292][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.292][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.293][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.293][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.294][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.295][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.295][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.295][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.297][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.297][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.298][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.299][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.300][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.310][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.311][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-08 18:33:39.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.318][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-08 18:33:39.318][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.319][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.321][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-08 18:33:39.322][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.322][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.323][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.326][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.327][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.327][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.328][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.328][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.329][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.330][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.330][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.332][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.332][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.333][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.334][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.334][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.336][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.336][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.337][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.337][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.338][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.338][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.339][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.339][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.340][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.340][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.341][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.342][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.343][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.344][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.345][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.345][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.346][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.347][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.347][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.347][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.349][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.349][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.350][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.359][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.361][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-08 18:33:39.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.365][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.366][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.369][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-08 18:33:39.369][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.370][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.371][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-08 18:33:39.371][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.372][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.372][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.375][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.377][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.377][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.377][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.379][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.379][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.380][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.381][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.381][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.382][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.383][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.384][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.384][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.386][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.386][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.386][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.387][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.388][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.388][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.389][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.389][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.390][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.390][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.391][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.391][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.393][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.396][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.397][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.397][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.398][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.399][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.400][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.401][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.401][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.402][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.405][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.413][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-08 18:33:39.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.415][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.419][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.420][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.DEBUG[2025-10-08 18:33:39.420][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-08 18:33:39.420][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.421][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.425][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-08 18:33:39.425][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.426][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.426][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.427][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.431][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.431][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.432][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.433][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.434][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.434][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.434][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.436][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.436][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.436][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.437][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.438][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.438][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.439][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.439][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.440][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.440][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.441][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.441][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.442][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.442][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.443][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.443][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.444][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.444][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.444][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.446][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.446][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.446][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.448][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.448][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.449][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.449][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.450][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.450][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.451][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.451][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.452][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.452][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.453][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.465][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-08 18:33:39.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.469][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.472][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-08 18:33:39.473][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.473][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.475][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-08 18:33:39.475][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.475][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.476][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.476][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.480][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.480][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.481][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.483][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.483][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.483][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.484][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.485][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.485][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.486][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.486][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.487][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.487][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.488][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.489][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.489][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.490][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.491][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.492][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.492][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.492][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.493][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.493][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.493][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.494][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.495][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.495][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.495][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.497][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.497][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.498][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.498][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.499][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.499][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.500][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.500][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.501][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.502][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.502][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.502][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.511][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.516][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.517][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-08 18:33:39.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.519][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.523][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.524][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.524][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-08 18:33:39.525][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.525][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.527][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-08 18:33:39.527][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.527][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.528][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.528][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.533][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.533][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.534][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.535][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.535][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.536][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.538][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.538][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.538][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.539][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.540][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.540][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.541][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.541][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.542][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.543][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.543][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.543][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.545][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.545][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.545][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.546][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.546][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.547][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.548][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.549][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.549][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.550][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.550][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.551][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.552][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.552][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.553][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.553][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.554][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.555][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.555][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.555][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.567][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-08 18:33:39.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.568][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.569][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.573][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-08 18:33:39.574][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.574][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.576][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-08 18:33:39.576][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.577][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.577][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.580][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.582][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.582][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.582][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.584][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.584][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.585][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.585][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.586][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.587][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.587][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.588][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.589][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.589][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.590][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.591][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.591][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.593][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.593][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.594][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.594][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.594][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.595][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.595][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.596][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.597][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.597][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.598][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.599][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.600][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.601][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.601][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.602][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.603][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.603][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.604][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.604][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.606][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.615][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-08 18:33:39.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.619][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.625][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-08 18:33:39.626][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.626][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.627][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-08 18:33:39.627][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.628][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.628][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.632][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.632][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.TRACE[2025-10-08 18:33:39.633][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.633][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.634][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.635][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.636][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.636][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.637][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.638][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.638][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.639][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.640][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.640][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.641][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.641][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.642][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.642][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.643][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.643][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.643][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.644][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.644][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.644][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.645][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.646][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.646][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.647][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.647][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.648][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.648][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.650][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.651][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.652][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.653][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.653][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.654][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.658][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.665][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-08 18:33:39.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.666][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.669][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.672][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-08 18:33:39.672][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.673][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.674][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-08 18:33:39.674][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.674][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.675][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.679][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.680][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.680][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.682][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.682][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.682][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.683][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.684][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.684][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.685][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.686][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.686][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.687][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.687][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.688][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.688][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.689][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.689][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.690][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.690][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.691][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.692][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.692][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.693][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.694][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.694][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.695][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.696][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.697][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.697][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.697][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.699][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.699][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.703][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.710][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-08 18:33:39.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.717][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-08 18:33:39.717][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.718][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.719][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-08 18:33:39.720][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.720][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.720][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.721][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.723][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.725][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.725][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.726][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.727][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.727][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.728][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.729][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.730][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.730][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.730][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.732][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.732][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.732][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.733][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.734][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.734][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.734][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.736][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.736][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.737][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.737][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.740][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.740][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.741][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.742][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.742][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.744][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.744][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.745][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.745][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.746][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.747][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.747][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.749][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.749][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.749][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.759][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.762][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-08 18:33:39.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.769][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.770][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-08 18:33:39.770][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.771][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.773][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-08 18:33:39.773][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.774][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.774][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.779][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.779][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.780][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.781][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.782][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.782][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.783][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.784][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.784][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.784][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.785][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.786][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.786][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.787][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.787][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.788][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.788][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.789][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.790][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.790][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.791][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.791][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.792][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.792][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.792][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.793][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.794][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.794][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.796][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.796][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.796][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.797][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.798][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.798][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.798][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.799][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.800][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.800][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.801][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.801][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.802][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.803][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.812][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-08 18:33:39.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.819][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.819][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[2025-10-08 18:33:39.819][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-08 18:33:39.819][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.820][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.821][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-08 18:33:39.822][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.822][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.822][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.826][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.TRACE[2025-10-08 18:33:39.827][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.827][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.828][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.829][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.829][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.830][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.830][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.831][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.832][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.832][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.832][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.833][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.834][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.834][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.835][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.836][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.836][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.836][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.838][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.839][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.839][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.839][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.840][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.840][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.841][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.841][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.842][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.843][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.844][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.845][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.846][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.846][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.846][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.848][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.848][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.848][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.849][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.850][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.863][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-08 18:33:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.866][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.869][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.869][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-08 18:33:39.870][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.870][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.872][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-08 18:33:39.872][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.872][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.873][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.877][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.878][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.880][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.880][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.881][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.881][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.882][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.882][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.883][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.885][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.885][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.885][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.886][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.887][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.887][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.888][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.888][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.889][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.889][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.890][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.890][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.890][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.891][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.892][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.893][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.893][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.894][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.895][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.896][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.897][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.897][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.897][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.898][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.899][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.899][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.900][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.903][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.909][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.911][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-08 18:33:39.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.913][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.918][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.918][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.DEBUG[2025-10-08 18:33:39.918][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-08 18:33:39.918][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.919][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.920][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-08 18:33:39.921][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.921][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.921][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.924][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.926][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.926][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.927][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.928][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.928][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.929][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.930][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.931][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.931][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.932][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.932][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.934][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.934][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.936][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.936][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.937][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.938][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.938][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.939][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.939][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.940][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.941][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.941][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.942][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.943][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.943][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.944][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.944][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.945][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.946][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.946][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.946][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.948][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.948][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.948][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.949][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.959][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.960][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-08 18:33:39.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.964][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:39.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:39.969][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-08 18:33:39.969][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:39.969][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:39.970][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-08 18:33:39.971][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:39.971][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:39.971][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:39.972][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:39.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:39.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:39.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:39.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:39.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:39.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:39.975][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.976][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.977][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.978][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.978][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.978][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:39.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:39.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.979][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.980][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.980][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.981][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:39.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.982][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.982][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.982][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.983][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:39.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:39.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.984][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.984][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:39.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.985][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.986][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:39.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.986][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.986][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.987][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.987][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:39.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:39.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.989][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.989][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:39.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.991][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.991][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.991][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.992][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:39.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:39.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.993][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.993][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.993][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.994][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:39.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:39.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.995][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.996][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:39.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:39.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.997][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:39.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:39.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:39.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:39.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:39.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.003][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.006][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-08 18:33:40.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.012][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[2025-10-08 18:33:40.012][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-08 18:33:40.013][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:40.013][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:40.014][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-08 18:33:40.015][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.015][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:40.016][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:40.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.016][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.020][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.020][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.021][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.021][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.023][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:40.023][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:40.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.024][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:40.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:40.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.025][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:40.025][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:40.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.026][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.026][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:40.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:40.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.027][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:40.027][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:40.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.028][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.028][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:40.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:40.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.029][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.029][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.030][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.030][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.031][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:40.032][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:40.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.032][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.032][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:40.033][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.034][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:40.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.035][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.035][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.037][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:40.037][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:40.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.038][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.038][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:40.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:40.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.039][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:40.039][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:40.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.040][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.040][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:40.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:40.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.041][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:40.042][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:40.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.042][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.042][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:40.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:40.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.044][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.054][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-08 18:33:40.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:40.064][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.065][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.066][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-08 18:33:40.066][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.074][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.076][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.078][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.082][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.083][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.087][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.090][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.091][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.093][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.105][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.117][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.123][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.124][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.129][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.129][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.133][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.154][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.159][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.162][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.174][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.174][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.178][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.179][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.195][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.200][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.208][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.216][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.225][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:40.235][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.236][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.238][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-08 18:33:40.238][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:40.239][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.240][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.241][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-08 18:33:40.241][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:40.246][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-08 18:33:40.246][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:40.247][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:40.248][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-08 18:33:40.249][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.249][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:40.249][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:40.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.254][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.254][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.255][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.257][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:40.257][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:40.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.257][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.258][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:40.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:40.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.259][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:40.260][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:40.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.260][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.261][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:40.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:40.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.262][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:40.262][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:40.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.263][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.263][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:40.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:40.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.265][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.265][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.265][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.267][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:40.267][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:40.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.268][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.268][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:40.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:40.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.270][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:40.270][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.271][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.272][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.272][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.275][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:40.275][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:40.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.275][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.276][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:40.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:40.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.277][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:40.277][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:40.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.278][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.278][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:40.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:40.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.280][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:40.280][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:40.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.281][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.281][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:40.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:40.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.283][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.294][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-08 18:33:40.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.299][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.301][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.302][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.302][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.TRACE[2025-10-08 18:33:40.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.306][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.309][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:40.310][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-08 18:33:40.310][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:40.311][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:40.312][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-08 18:33:40.313][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.313][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:40.314][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:40.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.322][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.322][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.323][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.324][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:40.324][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:40.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.325][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:40.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.326][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:40.344][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:40.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.345][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:40.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:40.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.346][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:40.346][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:40.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.347][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:40.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:40.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.348][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.349][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.350][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:40.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.351][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:40.352][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:40.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.352][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.353][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:40.353][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.354][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:40.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.355][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.355][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.357][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:40.357][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:40.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.358][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.358][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:40.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:40.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.359][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:40.360][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:40.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.361][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:40.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:40.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.362][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:40.362][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:40.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.362][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.363][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:40.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:40.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:40.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:40.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.374][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-08 18:33:40.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:40.384][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.385][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.386][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-08 18:33:40.386][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.388][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.388][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.392][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.395][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.397][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.400][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.407][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.411][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.419][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.422][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.432][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.435][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.442][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.443][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.445][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.448][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.450][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.464][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.467][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.473][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.480][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.488][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.490][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.491][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.492][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.494][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.499][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.501][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.507][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.508][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.522][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:40.532][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.532][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.534][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-08 18:33:40.534][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.535][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.537][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.538][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.544][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.545][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.560][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.576][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.584][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.588][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.594][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.595][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.597][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.597][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.601][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.609][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.620][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.620][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.622][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.630][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.632][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.639][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.642][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.643][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.650][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.652][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.660][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.676][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-08 18:33:40.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-08 18:33:40.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:40.680][biodb::testThat]
biodb.INFO [2025-10-08 18:33:40.682][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-08 18:33:40.683][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:40.683][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:40.684][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-08 18:33:40.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-08 18:33:40.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.686][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.690][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:40.694][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.695][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.695][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-08 18:33:40.696][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.699][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:40.703][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.704][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.704][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-08 18:33:40.704][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.705][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.706][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.708][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.714][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.715][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.718][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-08 18:33:40.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.721][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.723][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.724][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.724][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.724][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.724][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.725][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.725][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.726][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.726][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.726][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.727][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.727][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.727][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.727][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.728][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.728][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.735][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-08 18:33:40.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.740][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.741][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.741][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.741][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.741][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.742][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.742][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.742][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.743][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.743][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.744][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.744][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.745][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.745][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.749][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-08 18:33:40.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.750][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.752][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.754][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.755][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.755][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.755][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.756][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.756][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.758][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.758][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.758][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.759][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.759][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.759][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.763][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-08 18:33:40.763][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-08 18:33:40.763][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-08 18:33:40.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.770][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:40.794][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.795][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.796][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-08 18:33:40.797][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:40.798][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.798][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.799][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-08 18:33:40.800][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.808][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.808][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.810][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.810][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.828][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-08 18:33:40.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.838][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.841][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.841][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.841][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.842][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.842][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.842][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.843][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.843][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.844][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.844][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.844][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.845][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.845][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.845][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.846][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.849][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-08 18:33:40.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.850][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.852][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.865][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.865][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.866][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.866][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.866][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.867][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.868][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.868][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.868][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.869][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.872][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.872][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.872][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.873][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.873][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.875][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.877][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-08 18:33:40.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.879][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.879][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.880][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.880][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.882][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.883][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.883][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.883][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.883][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.884][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.884][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.884][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.885][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.885][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.886][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.886][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.887][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.887][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.887][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.891][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-08 18:33:40.891][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-08 18:33:40.891][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-08 18:33:40.895][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-08 18:33:40.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-08 18:33:40.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:40.897][biodb::testThat]
biodb.INFO [2025-10-08 18:33:40.897][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-08 18:33:40.898][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:40.901][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:40.902][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-08 18:33:40.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-08 18:33:40.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.904][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.908][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:40.912][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.913][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.914][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-08 18:33:40.914][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.915][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.917][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.919][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:40.922][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.922][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.923][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-08 18:33:40.923][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.924][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.924][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.933][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.933][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:40.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.937][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-08 18:33:40.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.941][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.943][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.943][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.944][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.944][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.944][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.944][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.945][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.945][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.946][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.946][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.946][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.947][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.947][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.948][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.948][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.950][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.951][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-08 18:33:40.952][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.952][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.955][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.TRACE[2025-10-08 18:33:40.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.956][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.957][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.957][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.958][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.958][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.958][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.959][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.960][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.961][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.961][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.961][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.962][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.962][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.966][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-08 18:33:40.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.969][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.971][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.972][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:40.972][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:40.972][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:40.972][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.972][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.973][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.973][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.974][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.974][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.975][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:40.975][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.976][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:40.976][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:40.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.979][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-08 18:33:40.979][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-08 18:33:40.980][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-08 18:33:40.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:40.985][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:40.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:40.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:40.990][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.991][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.992][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-08 18:33:40.992][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:40.993][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:40.994][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:40.995][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-08 18:33:40.995][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:40.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:40.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:40.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:40.998][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:40.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:40.998][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:40.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:40.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:40.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.002][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.005][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.007][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.008][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.011][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.017][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.018][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-08 18:33:41.018][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.024][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.024][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.024][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.025][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.025][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.025][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.026][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.027][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.028][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.028][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.029][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.029][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.030][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.032][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-08 18:33:41.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.035][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.039][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.039][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.039][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.039][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.039][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.040][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.040][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.041][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.042][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.042][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.042][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.042][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.043][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.043][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.047][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-08 18:33:41.047][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.047][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.049][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.050][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.053][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.053][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.053][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.054][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.054][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.055][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.055][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.055][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.056][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.056][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.057][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.057][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.061][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-08 18:33:41.061][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-08 18:33:41.061][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-08 18:33:41.064][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-08 18:33:41.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-08 18:33:41.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:41.066][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.066][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-08 18:33:41.067][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.067][biodb::testThat]
biodb.TRACE[2025-10-08 18:33:41.068][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-08 18:33:41.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-08 18:33:41.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.074][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:41.078][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:41.079][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.079][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-08 18:33:41.080][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.081][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.083][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-08 18:33:41.087][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:41.088][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.088][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-08 18:33:41.088][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.089][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.092][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.094][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.095][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.099][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.100][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-08 18:33:41.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.101][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.106][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.106][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.106][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.106][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.107][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.108][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.108][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.108][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.108][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.109][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.109][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.109][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.110][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.113][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-08 18:33:41.114][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.114][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.118][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.119][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.119][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.122][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.122][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.123][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.124][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.124][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.124][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.125][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.125][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.126][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.129][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-08 18:33:41.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.133][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.134][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.135][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.135][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.135][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.135][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.136][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.136][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.136][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.137][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.137][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.137][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.138][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.138][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.138][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.139][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.141][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.142][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.143][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-08 18:33:41.143][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-08 18:33:41.143][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-08 18:33:41.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.152][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:41.159][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:41.160][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.160][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-08 18:33:41.161][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:41.162][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:41.162][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.163][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-08 18:33:41.163][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.164][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.175][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.183][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-08 18:33:41.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.186][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.189][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.189][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.189][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.189][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.190][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.191][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.192][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.192][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.192][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.193][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.193][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.197][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-08 18:33:41.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.200][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[2025-10-08 18:33:41.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.202][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.203][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.203][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.203][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.204][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.204][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.204][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.205][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.205][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.205][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.206][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.206][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.207][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.207][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.211][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-08 18:33:41.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.217][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.217][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-08 18:33:41.217][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-08 18:33:41.217][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-08 18:33:41.218][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.218][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.219][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.219][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.220][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.220][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.220][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-08 18:33:41.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.221][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.221][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.222][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-08 18:33:41.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.225][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-08 18:33:41.225][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-08 18:33:41.226][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-08 18:33:41.235][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-08 18:33:41.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-08 18:33:41.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:41.237][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.238][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-08 18:33:41.238][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.238][biodb::testThat]
biodb.DEBUG[2025-10-08 18:33:41.239][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-08 18:33:41.239][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:41.239][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:41.240][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-08 18:33:41.241][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.241][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:41.242][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:41.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.246][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.246][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.247][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.248][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:41.249][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:41.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.249][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.250][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:41.250][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:41.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.250][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.251][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:41.251][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:41.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.252][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.252][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.252][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.253][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.253][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.253][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.254][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:41.254][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.255][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.255][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.256][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.256][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.256][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.256][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:41.257][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:41.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.257][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.258][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:41.258][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:41.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.258][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.259][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:41.259][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:41.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.259][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.270][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-08 18:33:41.271][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-08 18:33:41.274][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.274][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-08 18:33:41.274][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.274][biodb::testThat]
biodb.DEBUG[2025-10-08 18:33:41.278][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-08 18:33:41.278][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-08 18:33:41.279][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-08 18:33:41.279][cch$loadContents] Load 3 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:41.280][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-08 18:33:41.281][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-08 18:33:41.282][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-08 18:33:41.283][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.283][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-08 18:33:41.284][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:41.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.287][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.288][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.288][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.289][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.289][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.290][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:41.291][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:41.291][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.291][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:41.292][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:41.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.292][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.293][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:41.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:41.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.293][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.294][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.294][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.294][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.295][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.295][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.295][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.296][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:41.296][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.297][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.297][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.298][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.298][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:41.298][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:41.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.299][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:41.299][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:41.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.300][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:41.301][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:41.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.301][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.304][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.311][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.313][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.313][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.314][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.315][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:41.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:41.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.316][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.316][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:41.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:41.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.317][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:41.317][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:41.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.318][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:41.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:41.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.319][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:41.320][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:41.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.320][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:41.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:41.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.322][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.322][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.322][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.323][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.324][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.324][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.325][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.326][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:41.326][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.327][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:41.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.328][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.328][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.329][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.330][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:41.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:41.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.331][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:41.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:41.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.332][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:41.333][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:41.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.333][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.333][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:41.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:41.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.335][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:41.335][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:41.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.336][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:41.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:41.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.341][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.349][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:41.351][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.351][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.352][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.353][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:41.353][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:41.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.354][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:41.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:41.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.355][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:41.356][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:41.356][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.357][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:41.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:41.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.358][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:41.358][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:41.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.358][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.359][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:41.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:41.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.360][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.360][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.361][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.361][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:41.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.362][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.362][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.363][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.363][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:41.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.364][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:41.365][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.366][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:41.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:41.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.367][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.367][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.367][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.369][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:41.369][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:41.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:41.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:41.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.371][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:41.372][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:41.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.372][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:41.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:41.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.374][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:41.374][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:41.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.375][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:41.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:41.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.377][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.378][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:41.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:41.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:41.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:41.392][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-08 18:33:41.392][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-08 18:33:41.393][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-08 18:33:41.397][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.397][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-08 18:33:41.398][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.398][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.406][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.406][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-08 18:33:41.406][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.407][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.409][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.410][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-08 18:33:41.410][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.410][biodb::testThat]
sched.DEBUG[2025-10-08 18:33:41.411][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:41.412][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.414][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-08 18:33:41.415][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-08 18:33:41.419][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:41.420][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:41.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:41.420][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.421][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:41.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:41.421][ef$get] fields variable is a list.
biodb.INFO [2025-10-08 18:33:41.422][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.422][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-08 18:33:41.422][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.423][biodb::testThat]
biodb.ERROR[2025-10-08 18:33:41.427][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-08 18:33:41.433][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-08 18:33:41.437][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-08 18:33:41.438][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-08 18:33:41.438][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-08 18:33:41.438][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.439][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.439][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-08 18:33:41.443][biodb::testContext]
biodb.INFO [2025-10-08 18:33:41.443][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-08 18:33:41.443][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-08 18:33:41.444][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-08 18:33:41.444][biodb::testContext]
biodb.INFO [2025-10-08 18:33:41.445][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-08 18:33:41.445][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-08 18:33:41.447][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.447][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-08 18:33:41.447][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.448][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-08 18:33:41.454][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.455][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-08 18:33:41.455][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.456][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-08 18:33:41.456][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-08 18:33:41.457][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.458][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-08 18:33:41.458][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-08 18:33:41.458][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.459][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-08 18:33:41.459][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.460][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-08 18:33:41.464][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-08 18:33:41.464][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-08 18:33:41.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.465][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-08 18:33:41.466][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.467][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-08 18:33:41.467][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-08 18:33:41.467][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.468][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-08 18:33:41.468][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-08 18:33:41.469][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-08 18:33:41.469][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-08 18:33:41.469][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-08 18:33:41.469][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-08 18:33:41.470][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.470][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-08 18:33:41.471][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-08 18:33:41.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.471][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-08 18:33:41.472][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-08 18:33:41.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.473][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-08 18:33:41.473][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.474][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-08 18:33:41.474][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-08 18:33:41.474][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-08 18:33:41.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.475][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-08 18:33:41.476][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-08 18:33:41.480][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-08 18:33:41.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.481][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-08 18:33:41.482][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-08 18:33:41.482][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-08 18:33:41.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.483][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-08 18:33:41.484][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.484][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-08 18:33:41.484][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.485][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.485][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.485][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.485][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.486][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.486][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-08 18:33:41.486][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.486][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.487][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-08 18:33:41.487][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.487][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.487][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.488][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:41.488][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:41.488][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:41.488][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-08 18:33:41.488][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-08 18:33:41.488][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.488][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.489][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.489][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.490][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.490][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.490][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.490][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.491][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.491][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.491][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-08 18:33:41.492][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.492][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-08 18:33:41.492][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.493][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.493][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.493][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.493][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.494][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.494][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-08 18:33:41.494][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.495][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.495][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-08 18:33:41.495][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.495][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.496][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.496][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:41.496][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:41.496][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:41.496][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-08 18:33:41.496][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-08 18:33:41.496][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.497][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.497][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.498][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.498][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.498][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.498][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.499][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.499][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.499][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.499][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-08 18:33:41.500][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.500][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-08 18:33:41.500][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.501][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.501][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.501][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.502][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.502][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.502][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-08 18:33:41.502][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.503][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.503][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-08 18:33:41.503][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.503][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.504][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.504][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.504][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.504][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.505][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.505][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.505][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.506][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.506][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.506][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.506][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.507][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.507][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.507][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-08 18:33:41.508][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.508][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-08 18:33:41.508][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.509][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.509][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.509][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.509][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.510][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.510][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-08 18:33:41.510][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.510][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.511][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-08 18:33:41.511][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.511][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.511][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.512][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.512][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.512][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.513][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.513][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.513][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.513][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.514][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.514][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.514][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.514][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.515][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.515][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.515][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.519][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.DEBUG[2025-10-08 18:33:41.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.523][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.530][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.531][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[2025-10-08 18:33:41.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.535][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.DEBUG[2025-10-08 18:33:41.535][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-08 18:33:41.535][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-08 18:33:41.536][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-08 18:33:41.536][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-08 18:33:41.537][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-08 18:33:41.537][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-08 18:33:41.537][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-08 18:33:41.538][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-08 18:33:41.538][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-08 18:33:41.538][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-08 18:33:41.539][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-08 18:33:41.539][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-08 18:33:41.540][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-08 18:33:41.540][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-08 18:33:41.540][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-08 18:33:41.541][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-08 18:33:41.541][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-08 18:33:41.541][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-08 18:33:41.542][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-08 18:33:41.542][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-08 18:33:41.543][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-08 18:33:41.543][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-08 18:33:41.543][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-08 18:33:41.544][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-08 18:33:41.544][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-08 18:33:41.545][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-08 18:33:41.545][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-08 18:33:41.545][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-08 18:33:41.546][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-08 18:33:41.546][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-08 18:33:41.546][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-08 18:33:41.547][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-08 18:33:41.547][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-08 18:33:41.548][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-08 18:33:41.548][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-08 18:33:41.548][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-08 18:33:41.549][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-08 18:33:41.549][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-08 18:33:41.549][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-08 18:33:41.550][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-08 18:33:41.550][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-08 18:33:41.551][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-08 18:33:41.551][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-08 18:33:41.551][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-08 18:33:41.552][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-08 18:33:41.552][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-08 18:33:41.553][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-08 18:33:41.553][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-08 18:33:41.553][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-08 18:33:41.554][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-08 18:33:41.554][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-08 18:33:41.554][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-08 18:33:41.555][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-08 18:33:41.555][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-08 18:33:41.556][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-08 18:33:41.556][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-08 18:33:41.556][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-08 18:33:41.557][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-08 18:33:41.557][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-08 18:33:41.557][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-08 18:33:41.558][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-08 18:33:41.558][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-08 18:33:41.559][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-08 18:33:41.559][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-08 18:33:41.559][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-08 18:33:41.560][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-08 18:33:41.560][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-08 18:33:41.560][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-08 18:33:41.561][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-08 18:33:41.561][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-08 18:33:41.561][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-08 18:33:41.562][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-08 18:33:41.562][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-08 18:33:41.563][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-08 18:33:41.563][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-08 18:33:41.563][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-08 18:33:41.564][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-08 18:33:41.564][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-08 18:33:41.564][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-08 18:33:41.565][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-08 18:33:41.565][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-08 18:33:41.566][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-08 18:33:41.566][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-08 18:33:41.571][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-08 18:33:41.571][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-08 18:33:41.571][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.572][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.572][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.573][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.574][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[2025-10-08 18:33:41.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.577][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.579][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[2025-10-08 18:33:41.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.582][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.586][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.587][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[2025-10-08 18:33:41.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.588][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[2025-10-08 18:33:41.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.592][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[2025-10-08 18:33:41.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.594][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.596][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.596][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.597][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.599][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-08 18:33:41.599][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-08 18:33:41.600][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.600][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.600][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.601][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.601][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.601][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.602][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.602][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-08 18:33:41.602][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-08 18:33:41.602][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-08 18:33:41.603][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-08 18:33:41.604][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.604][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:41.604][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:41.604][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:41.604][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-08 18:33:41.604][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.605][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.605][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.605][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.606][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.606][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-08 18:33:41.606][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-08 18:33:41.606][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.606][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.607][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.607][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-08 18:33:41.607][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-08 18:33:41.607][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-08 18:33:41.608][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-08 18:33:41.608][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-08 18:33:41.609][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-08 18:33:41.609][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-08 18:33:41.609][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-08 18:33:41.610][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-08 18:33:41.612][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-08 18:33:41.612][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.613][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-08 18:33:41.613][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.613][biodb::testThat]
sched.DEBUG[2025-10-08 18:33:41.614][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-08 18:33:41.615][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.617][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-08 18:33:41.617][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:41.619][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 [2025-10-08 18:33:41.619][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.620][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-08 18:33:41.621][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.625][FUN] Functions in observer 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[2025-10-08 18:33:41.625][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 [2025-10-08 18:33:41.626][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.627][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-08 18:33:41.627][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.637][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.640][FUN] Functions in observer 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[2025-10-08 18:33:41.641][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 [2025-10-08 18:33:41.642][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.643][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-08 18:33:41.643][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.644][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.644][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.646][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:41.647][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 [2025-10-08 18:33:41.648][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.648][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-08 18:33:41.649][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.652][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.653][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:41.656][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 [2025-10-08 18:33:41.657][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.658][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-08 18:33:41.658][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.662][FUN] Functions in observer 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[2025-10-08 18:33:41.662][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 [2025-10-08 18:33:41.663][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.663][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-08 18:33:41.664][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.664][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.665][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-08 18:33:41.668][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 [2025-10-08 18:33:41.669][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.673][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-08 18:33:41.673][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.674][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.676][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.677][FUN] Functions in observer BiodbConfig: [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 [2025-10-08 18:33:41.679][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.679][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-08 18:33:41.680][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.680][biodb::testThat]
sched.DEBUG[2025-10-08 18:33:41.681][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 [2025-10-08 18:33:41.682][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.683][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-08 18:33:41.683][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.684][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.687][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".
sched.DEBUG[2025-10-08 18:33:41.688][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 [2025-10-08 18:33:41.689][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.690][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-08 18:33:41.690][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:41.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:41.691][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.694][FUN] Functions in observer BiodbConfig: [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 [2025-10-08 18:33:41.695][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-08 18:33:41.696][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-08 18:33:41.696][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-08 18:33:41.696][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.697][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.697][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.697][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-08 18:33:41.699][biodb::testContext]
biodb.INFO [2025-10-08 18:33:41.699][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-08 18:33:41.699][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-08 18:33:41.700][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-08 18:33:41.700][biodb::testContext]
biodb.INFO [2025-10-08 18:33:41.701][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-08 18:33:41.701][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-08 18:33:41.703][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.703][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-08 18:33:41.703][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.704][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-08 18:33:41.705][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.706][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-08 18:33:41.706][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.707][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-08 18:33:41.707][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-08 18:33:41.708][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.708][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[2025-10-08 18:33:41.709][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-08 18:33:41.709][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-08 18:33:41.709][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.710][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-08 18:33:41.710][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.711][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-08 18:33:41.712][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-08 18:33:41.712][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-08 18:33:41.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.713][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-08 18:33:41.713][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.714][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-08 18:33:41.714][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-08 18:33:41.715][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.715][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-08 18:33:41.716][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-08 18:33:41.716][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-08 18:33:41.716][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-08 18:33:41.717][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-08 18:33:41.717][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-08 18:33:41.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.718][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.DEBUG[2025-10-08 18:33:41.718][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-08 18:33:41.718][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-08 18:33:41.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.719][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.719][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-08 18:33:41.719][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-08 18:33:41.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.720][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.DEBUG[2025-10-08 18:33:41.720][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-08 18:33:41.720][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.721][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-08 18:33:41.722][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-08 18:33:41.722][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-08 18:33:41.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.723][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[2025-10-08 18:33:41.723][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-08 18:33:41.723][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-08 18:33:41.728][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-08 18:33:41.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.729][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-08 18:33:41.730][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-08 18:33:41.730][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-08 18:33:41.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.731][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-08 18:33:41.731][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.732][self$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[2025-10-08 18:33:41.732][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.732][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.733][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.733][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.733][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.733][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.734][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-08 18:33:41.734][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.734][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.734][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-08 18:33:41.735][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.735][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.735][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.735][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:41.735][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:41.735][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:41.735][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-08 18:33:41.735][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-08 18:33:41.736][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.736][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.736][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.737][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.737][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.737][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.738][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.738][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.738][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.738][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.739][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-08 18:33:41.739][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.740][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-08 18:33:41.740][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.740][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.740][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.741][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.741][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.741][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.741][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-08 18:33:41.742][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.742][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.742][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-08 18:33:41.742][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.743][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.743][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.743][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:41.743][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:41.743][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:41.743][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-08 18:33:41.743][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-08 18:33:41.743][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.744][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.744][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.745][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.745][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.745][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.745][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.746][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.746][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.746][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.746][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-08 18:33:41.747][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.747][self$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[2025-10-08 18:33:41.747][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.748][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.748][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.748][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.749][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.749][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.749][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-08 18:33:41.749][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.750][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.750][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-08 18:33:41.750][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.750][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.751][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.751][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.751][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.751][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.752][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.752][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.752][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.752][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.753][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.753][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.753][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.753][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.754][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.754][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.754][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-08 18:33:41.755][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.755][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-08 18:33:41.755][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.755][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.756][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.756][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.756][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.756][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.757][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-08 18:33:41.757][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.757][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.757][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-08 18:33:41.758][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.758][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.758][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.758][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.759][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.759][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.759][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.759][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.760][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.760][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.760][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.760][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.761][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.761][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.761][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.761][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.762][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.762][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.762][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[2025-10-08 18:33:41.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.764][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[2025-10-08 18:33:41.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.767][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[2025-10-08 18:33:41.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.769][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[2025-10-08 18:33:41.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.770][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[2025-10-08 18:33:41.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.775][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[2025-10-08 18:33:41.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.776][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[2025-10-08 18:33:41.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.777][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[2025-10-08 18:33:41.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.779][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[2025-10-08 18:33:41.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.781][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-08 18:33:41.781][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-08 18:33:41.781][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-08 18:33:41.785][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-08 18:33:41.785][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-08 18:33:41.786][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-08 18:33:41.786][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-08 18:33:41.786][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-08 18:33:41.787][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-08 18:33:41.787][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-08 18:33:41.787][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-08 18:33:41.788][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-08 18:33:41.788][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-08 18:33:41.788][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-08 18:33:41.789][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-08 18:33:41.789][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-08 18:33:41.790][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-08 18:33:41.790][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-08 18:33:41.790][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-08 18:33:41.791][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-08 18:33:41.791][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-08 18:33:41.791][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-08 18:33:41.792][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-08 18:33:41.792][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-08 18:33:41.792][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-08 18:33:41.793][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-08 18:33:41.793][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-08 18:33:41.794][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-08 18:33:41.794][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-08 18:33:41.794][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-08 18:33:41.795][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-08 18:33:41.795][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-08 18:33:41.795][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-08 18:33:41.796][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-08 18:33:41.796][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-08 18:33:41.796][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-08 18:33:41.797][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-08 18:33:41.797][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-08 18:33:41.797][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-08 18:33:41.798][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-08 18:33:41.798][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-08 18:33:41.799][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-08 18:33:41.799][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-08 18:33:41.799][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-08 18:33:41.800][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-08 18:33:41.800][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-08 18:33:41.800][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-08 18:33:41.801][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-08 18:33:41.801][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-08 18:33:41.802][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-08 18:33:41.802][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-08 18:33:41.802][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-08 18:33:41.803][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-08 18:33:41.803][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-08 18:33:41.803][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-08 18:33:41.804][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-08 18:33:41.804][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-08 18:33:41.804][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-08 18:33:41.805][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-08 18:33:41.805][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-08 18:33:41.805][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-08 18:33:41.806][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-08 18:33:41.806][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-08 18:33:41.807][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-08 18:33:41.807][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-08 18:33:41.807][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-08 18:33:41.808][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-08 18:33:41.808][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-08 18:33:41.808][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-08 18:33:41.809][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-08 18:33:41.809][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-08 18:33:41.810][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-08 18:33:41.810][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-08 18:33:41.810][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-08 18:33:41.811][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-08 18:33:41.811][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-08 18:33:41.811][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-08 18:33:41.812][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-08 18:33:41.812][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-08 18:33:41.812][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-08 18:33:41.813][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-08 18:33:41.813][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-08 18:33:41.814][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-08 18:33:41.814][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-08 18:33:41.814][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-08 18:33:41.815][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.815][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.816][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.817][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[2025-10-08 18:33:41.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.819][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[2025-10-08 18:33:41.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.829][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.832][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[2025-10-08 18:33:41.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.832][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.833][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[2025-10-08 18:33:41.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.835][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[2025-10-08 18:33:41.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.839][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.840][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.842][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-08 18:33:41.842][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-08 18:33:41.843][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.843][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.844][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.844][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.844][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.844][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.845][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.845][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-08 18:33:41.845][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-08 18:33:41.845][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-08 18:33:41.846][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-08 18:33:41.847][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.847][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:41.847][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:41.847][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:41.847][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-08 18:33:41.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.848][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.848][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.848][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.848][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.849][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.849][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-08 18:33:41.849][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-08 18:33:41.849][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.849][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.850][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.850][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-08 18:33:41.850][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-08 18:33:41.850][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-08 18:33:41.851][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-08 18:33:41.851][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-08 18:33:41.852][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-08 18:33:41.852][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-08 18:33:41.853][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-08 18:33:41.854][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-08 18:33:41.855][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-08 18:33:41.856][biodb::testThat]
biodb.INFO [2025-10-08 18:33:41.856][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-08 18:33:41.856][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:41.856][biodb::testThat]
sched.DEBUG[2025-10-08 18:33:41.857][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-08 18:33:41.858][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.860][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-08 18:33:41.860][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:41.861][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-08 18:33:41.862][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:41.863][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-08 18:33:41.863][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-08 18:33:41.866][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-08 18:33:41.867][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-08 18:33:41.867][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-08 18:33:41.867][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.868][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.868][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.868][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-08 18:33:41.870][biodb::testContext]
biodb.INFO [2025-10-08 18:33:41.870][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-08 18:33:41.870][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-08 18:33:41.870][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-08 18:33:41.871][biodb::testContext]
biodb.INFO [2025-10-08 18:33:41.871][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-08 18:33:41.872][self$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodb/definitions.yml".
biodb.DEBUG[2025-10-08 18:33:41.874][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.874][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-08 18:33:41.874][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.875][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.875][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-08 18:33:41.875][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.876][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-08 18:33:41.877][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.877][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.878][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-08 18:33:41.878][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-08 18:33:41.878][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.878][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.879][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-08 18:33:41.879][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-08 18:33:41.880][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.880][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.880][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-08 18:33:41.881][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.882][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-08 18:33:41.882][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-08 18:33:41.882][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-08 18:33:41.882][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.883][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-08 18:33:41.883][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.884][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.884][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.884][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-08 18:33:41.885][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-08 18:33:41.885][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-08 18:33:41.885][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.885][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[2025-10-08 18:33:41.886][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-08 18:33:41.886][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-08 18:33:41.886][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-08 18:33:41.886][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-08 18:33:41.887][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-08 18:33:41.887][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-08 18:33:41.890][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.891][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-08 18:33:41.892][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-08 18:33:41.892][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.892][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[2025-10-08 18:33:41.893][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-08 18:33:41.893][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-08 18:33:41.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.894][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-08 18:33:41.894][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-08 18:33:41.894][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.895][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.895][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-08 18:33:41.895][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-08 18:33:41.896][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-08 18:33:41.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.896][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-08 18:33:41.897][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-08 18:33:41.903][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-08 18:33:41.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.904][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[2025-10-08 18:33:41.904][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-08 18:33:41.904][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-08 18:33:41.905][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-08 18:33:41.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.906][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-08 18:33:41.906][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.906][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-08 18:33:41.907][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.907][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.907][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.908][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.908][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.908][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.908][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-08 18:33:41.909][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.909][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.909][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-08 18:33:41.909][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.910][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.910][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.910][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:41.910][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:41.910][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:41.910][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-08 18:33:41.910][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-08 18:33:41.910][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.911][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.912][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.912][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.912][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.913][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.913][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.913][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.914][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-08 18:33:41.914][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.914][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-08 18:33:41.915][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.915][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.915][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.915][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.916][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.916][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.916][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-08 18:33:41.916][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.917][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.917][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-08 18:33:41.917][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.917][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.918][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.918][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:41.918][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:41.918][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:41.918][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-08 18:33:41.918][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-08 18:33:41.918][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.919][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.919][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.920][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.920][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.920][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.920][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.921][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.921][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.921][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-08 18:33:41.922][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.922][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-08 18:33:41.922][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.923][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.923][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.923][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.924][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.924][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.924][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-08 18:33:41.924][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.925][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.925][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-08 18:33:41.925][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.925][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.926][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.926][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.926][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.926][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.927][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.927][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.927][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.928][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.928][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.928][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.929][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.929][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.929][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-08 18:33:41.930][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.930][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-08 18:33:41.930][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.931][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:41.931][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.931][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.931][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.932][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.932][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-08 18:33:41.932][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:41.932][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.933][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-08 18:33:41.933][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:41.933][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.933][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:41.934][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.934][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-08 18:33:41.934][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.934][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.935][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:41.935][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:41.935][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:41.935][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:41.936][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.936][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:41.936][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:41.936][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:41.937][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-08 18:33:41.937][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.937][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.939][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.941][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.DEBUG[2025-10-08 18:33:41.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.946][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.947][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.950][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[2025-10-08 18:33:41.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.955][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[2025-10-08 18:33:41.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.956][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-08 18:33:41.957][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-08 18:33:41.957][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-08 18:33:41.958][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-08 18:33:41.958][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-08 18:33:41.958][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-08 18:33:41.959][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-08 18:33:41.959][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-08 18:33:41.960][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-08 18:33:41.960][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-08 18:33:41.960][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-08 18:33:41.961][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-08 18:33:41.961][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-08 18:33:41.961][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-08 18:33:41.962][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-08 18:33:41.962][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-08 18:33:41.963][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-08 18:33:41.963][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-08 18:33:41.963][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-08 18:33:41.964][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-08 18:33:41.964][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-08 18:33:41.964][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-08 18:33:41.965][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-08 18:33:41.965][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-08 18:33:41.966][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-08 18:33:41.966][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-08 18:33:41.966][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-08 18:33:41.967][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-08 18:33:41.967][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-08 18:33:41.967][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-08 18:33:41.968][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-08 18:33:41.968][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-08 18:33:41.969][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-08 18:33:41.969][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-08 18:33:41.969][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-08 18:33:41.970][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-08 18:33:41.970][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-08 18:33:41.971][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-08 18:33:41.971][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-08 18:33:41.971][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-08 18:33:41.972][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-08 18:33:41.972][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-08 18:33:41.972][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-08 18:33:41.973][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-08 18:33:41.973][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-08 18:33:41.974][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-08 18:33:41.974][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-08 18:33:41.974][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-08 18:33:41.975][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-08 18:33:41.975][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-08 18:33:41.975][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-08 18:33:41.976][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-08 18:33:41.976][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-08 18:33:41.977][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-08 18:33:41.977][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-08 18:33:41.977][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-08 18:33:41.978][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-08 18:33:41.978][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-08 18:33:41.978][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-08 18:33:41.979][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-08 18:33:41.979][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-08 18:33:41.980][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-08 18:33:41.980][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-08 18:33:41.980][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-08 18:33:41.981][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-08 18:33:41.981][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-08 18:33:41.981][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-08 18:33:41.982][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-08 18:33:41.982][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-08 18:33:41.983][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-08 18:33:41.983][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-08 18:33:41.983][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-08 18:33:41.984][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-08 18:33:41.984][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-08 18:33:41.984][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-08 18:33:41.985][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-08 18:33:41.985][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-08 18:33:41.985][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-08 18:33:41.986][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-08 18:33:41.986][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-08 18:33:41.987][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-08 18:33:41.987][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-08 18:33:41.987][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-08 18:33:41.988][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-08 18:33:41.988][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-08 18:33:41.989][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-08 18:33:41.989][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.989][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.990][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[2025-10-08 18:33:41.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:41.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:41.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:41.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:41.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:41.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:41.999][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[2025-10-08 18:33:41.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:41.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.001][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[2025-10-08 18:33:42.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.008][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.010][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.014][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.017][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[2025-10-08 18:33:42.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-08 18:33:42.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-08 18:33:42.019][biodb$loadDefinitions] Load definitions from file "/Library/Frameworks/R.framework/Versions/4.5-arm64/Resources/library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-08 18:33:42.020][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-08 18:33:42.020][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:42.021][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-08 18:33:42.021][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:42.021][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-08 18:33:42.022][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:42.022][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-08 18:33:42.022][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:42.022][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-08 18:33:42.023][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-08 18:33:42.023][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-08 18:33:42.023][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:42.023][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-08 18:33:42.024][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-08 18:33:42.025][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-08 18:33:42.025][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-08 18:33:42.025][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-08 18:33:42.025][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-08 18:33:42.025][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:42.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:42.026][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-08 18:33:42.026][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-08 18:33:42.026][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-08 18:33:42.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-08 18:33:42.027][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-08 18:33:42.027][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-08 18:33:42.027][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-08 18:33:42.027][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-08 18:33:42.027][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-08 18:33:42.028][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-08 18:33:42.028][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-08 18:33:42.028][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-08 18:33:42.028][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-08 18:33:42.029][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-08 18:33:42.029][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-08 18:33:42.030][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-08 18:33:42.030][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-08 18:33:42.031][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-08 18:33:42.033][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-08 18:33:42.033][biodb::testThat]
biodb.INFO [2025-10-08 18:33:42.034][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-08 18:33:42.034][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-08 18:33:42.034][biodb::testThat]
sched.DEBUG[2025-10-08 18:33:42.035][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-08 18:33:42.036][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:42.037][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-08 18:33:42.038][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-08 18:33:42.039][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 [2025-10-08 18:33:42.040][private$cache$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/sched.
fscache.DEBUG[2025-10-08 18:33:42.040][FUN] Found encoding ISO-8859-1 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-08 18:33:42.041][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-08 18:33:42.042][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-08 18:33:42.044][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-08 18:33:42.045][cch$loadContents] Load 1 contents, from /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-08 18:33:42.048][FUN] Found encoding UTF-8 for file /Users/biocbuild/Library/Caches/org.R-project.R/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-08 18:33:42.049][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-08 18:33:42.050][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-08 18:33:42.050][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-08 18:33:42.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-08 18:33:42.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.053][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-08 18:33:42.055][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.055][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.057][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:42.058][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:42.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.058][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.059][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-08 18:33:42.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-08 18:33:42.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.060][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:42.060][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:42.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.060][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.061][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-08 18:33:42.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-08 18:33:42.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.062][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-08 18:33:42.062][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-08 18:33:42.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.063][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.063][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-08 18:33:42.063][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-08 18:33:42.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.064][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:42.064][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:42.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.065][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.065][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:42.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-08 18:33:42.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.066][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:42.067][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:42.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.067][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-08 18:33:42.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-08 18:33:42.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:42.069][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:42.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.069][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:42.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-08 18:33:42.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.071][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:42.071][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:42.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.071][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.072][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-08 18:33:42.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-08 18:33:42.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.073][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:42.073][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:42.073][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.074][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.074][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-08 18:33:42.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-08 18:33:42.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.075][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:42.075][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:42.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.076][ef$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.076][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-08 18:33:42.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-08 18:33:42.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:42.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:42.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:42.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-08 18:33:42.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-08 18:33:42.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-08 18:33:42.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-08 18:33:42.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-08 18:33:42.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-08 18:33:42.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-08 18:33:42.088][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-08 18:33:42.089][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-08 18:33:42.089][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-08 18:33:42.090][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-08 18:33:42.090][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-08 18:33:42.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-08 18:33:42.090][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-08 18:33:42.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-08 18:33:42.091][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-08 18:33:42.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
!is.na(content) is not TRUE

`actual`:       
`expected`: TRUE
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.na(content))
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
nchar(content) > 0 is not TRUE

`actual`:       
`expected`: TRUE
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(nchar(content) > 0)

[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
Error: Test failures
Execution halted

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.7040.2290.939
ChebiEntry0.0880.0060.094