Pierrick Roger
| Snapshot Date: 2025-11-14 13:45 -0500 (Fri, 14 Nov 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: RELEASE_3_22 |
| git_last_commit: 28c1b2d |
| git_last_commit_date: 2025-10-29 11:12:25 -0500 (Wed, 29 Oct 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-11-15 11:58 -0500 (Sat, 15 Nov 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4903 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4668 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 210/2361 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.16.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | OK | OK | | ||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | ERROR | skipped | ||||||||||
|
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. |
| Package: biodbChebi |
| Version: 1.16.0 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.16.0.tar.gz |
| StartedAt: 2025-11-14 21:39:32 -0500 (Fri, 14 Nov 2025) |
| EndedAt: 2025-11-14 21:41:07 -0500 (Fri, 14 Nov 2025) |
| EllapsedTime: 94.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.16.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.16.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’ * installing *source* package ‘biodbChebi’ ... ** this is package ‘biodbChebi’ version ‘1.16.0’ ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (biodbChebi)
biodbChebi.Rcheck/tests/testthat.Rout
R version 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-11-14 21:40:25.499][biodb::testContext]
biodb.INFO [2025-11-14 21:40:25.509][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-14 21:40:25.595][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-11-14 21:40:25.601][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-14 21:40:25.606][biodb::testContext]
biodb.INFO [2025-11-14 21:40:25.630][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-14 21:40:25.640][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-14 21:40:25.666][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:25.672][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-14 21:40:25.679][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-14 21:40:25.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.698][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-14 21:40:25.780][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-14 21:40:25.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.799][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-14 21:40:25.803][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-14 21:40:25.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.816][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-14 21:40:25.819][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-14 21:40:25.823][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-14 21:40:25.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.835][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[2025-11-14 21:40:25.839][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-14 21:40:25.843][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-14 21:40:25.847][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-14 21:40:25.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.859][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-14 21:40:25.862][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-14 21:40:25.866][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.876][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-14 21:40:25.880][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-14 21:40:25.883][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-14 21:40:25.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.893][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.896][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-14 21:40:25.902][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-14 21:40:25.904][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.915][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-14 21:40:25.919][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-14 21:40:25.924][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-14 21:40:25.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.939][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-14 21:40:25.942][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-14 21:40:25.946][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-14 21:40:25.949][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-14 21:40:25.957][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-14 21:40:25.961][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-14 21:40:25.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.975][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-14 21:40:25.979][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-14 21:40:25.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:25.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:25.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:25.996][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-14 21:40:26.000][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-14 21:40:26.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:26.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:26.011][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.DEBUG[2025-11-14 21:40:26.016][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-14 21:40:26.020][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-14 21:40:26.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:26.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:26.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:26.032][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-14 21:40:26.035][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-14 21:40:26.039][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-14 21:40:26.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:26.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:26.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:26.050][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-14 21:40:26.054][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-14 21:40:26.067][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-14 21:40:26.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:26.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:26.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:26.084][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-14 21:40:26.090][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-14 21:40:26.096][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-14 21:40:26.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:26.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:26.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:26.120][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-14 21:40:26.315][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:26.454][self$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[2025-11-14 21:40:26.462][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:26.467][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:26.473][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:26.477][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:26.482][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:26.488][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:26.497][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-14 21:40:26.507][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:26.526][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:26.535][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-14 21:40:26.544][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:26.557][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:26.567][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:26.580][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:26.580][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:26.580][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:26.580][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-14 21:40:26.580][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-14 21:40:26.589][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:26.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:26.608][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:26.627][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:26.637][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:26.645][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:26.658][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:26.668][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:26.682][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:26.695][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:26.704][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:26.719][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:26.729][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-14 21:40:26.754][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:26.766][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-14 21:40:26.909][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:26.924][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:26.944][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:26.959][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:26.972][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:26.988][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:27.004][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-14 21:40:27.018][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:27.030][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.046][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-14 21:40:27.066][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:27.077][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.097][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.113][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:27.113][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:27.113][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:27.113][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-14 21:40:27.113][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-14 21:40:27.129][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:27.144][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:27.160][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:27.166][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:27.184][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:27.194][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:27.208][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:27.218][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.232][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:27.242][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:27.260][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:27.276][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.292][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-14 21:40:27.318][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.334][self$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[2025-11-14 21:40:27.349][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.365][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:27.381][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.398][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:27.413][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:27.424][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:27.439][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-14 21:40:27.450][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:27.455][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:27.460][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-14 21:40:27.465][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:27.470][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.475][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.479][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.483][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:27.486][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:27.490][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:27.493][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:27.497][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:27.500][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:27.510][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:27.519][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.528][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:27.541][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:27.550][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:27.564][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.576][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-14 21:40:27.604][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.616][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-14 21:40:27.631][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.655][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:27.676][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.688][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:27.702][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:27.717][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:27.727][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-14 21:40:27.737][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:27.757][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:27.768][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-14 21:40:27.788][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:27.799][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.815][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:27.822][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.828][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:27.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:27.839][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:27.845][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:27.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:27.855][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:27.859][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:27.863][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.867][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:27.870][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:27.874][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:27.878][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:27.905][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:27.917][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:27.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:27.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:27.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:27.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:27.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.059][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.318][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[2025-11-14 21:40:28.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.635][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.752][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.DEBUG[2025-11-14 21:40:28.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:28.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:28.893][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:28.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:28.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:28.946][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[2025-11-14 21:40:28.965][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-14 21:40:29.008][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-14 21:40:29.030][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-14 21:40:29.049][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-14 21:40:29.058][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-14 21:40:29.065][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-14 21:40:29.084][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-14 21:40:29.099][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-14 21:40:29.114][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-14 21:40:29.131][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-14 21:40:29.152][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-14 21:40:29.170][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-14 21:40:29.187][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-14 21:40:29.209][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-14 21:40:29.230][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-14 21:40:29.247][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-14 21:40:29.267][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-14 21:40:29.278][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-14 21:40:29.299][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-14 21:40:29.316][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-14 21:40:29.336][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-14 21:40:29.355][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-14 21:40:29.372][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-14 21:40:29.393][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-14 21:40:29.413][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-14 21:40:29.430][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-14 21:40:29.446][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-14 21:40:29.464][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-14 21:40:29.574][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-14 21:40:29.601][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-14 21:40:29.626][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-14 21:40:29.648][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-14 21:40:29.670][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-14 21:40:29.686][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-14 21:40:29.707][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-14 21:40:29.727][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-14 21:40:29.744][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-14 21:40:29.765][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-14 21:40:29.789][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-14 21:40:29.821][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-14 21:40:29.831][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-14 21:40:29.842][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-14 21:40:29.852][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-14 21:40:29.862][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-14 21:40:29.870][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-14 21:40:29.877][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-14 21:40:29.884][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-14 21:40:29.891][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-14 21:40:29.899][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-14 21:40:29.915][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-14 21:40:29.923][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-14 21:40:29.932][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-14 21:40:29.940][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-14 21:40:29.948][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-14 21:40:29.956][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-14 21:40:29.964][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-14 21:40:29.972][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-14 21:40:29.979][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-14 21:40:29.986][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-14 21:40:29.993][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-14 21:40:30.000][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-14 21:40:30.007][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-14 21:40:30.013][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-14 21:40:30.020][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-14 21:40:30.027][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-14 21:40:30.034][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-14 21:40:30.041][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-14 21:40:30.049][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-14 21:40:30.055][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-14 21:40:30.063][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-14 21:40:30.069][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-14 21:40:30.075][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-14 21:40:30.082][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-14 21:40:30.088][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-14 21:40:30.094][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-14 21:40:30.100][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-14 21:40:30.106][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-14 21:40:30.112][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-14 21:40:30.119][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-14 21:40:30.127][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-14 21:40:30.135][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-14 21:40:30.144][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-14 21:40:30.153][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-14 21:40:30.187][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-14 21:40:30.197][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-14 21:40:30.213][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:30.219][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.232][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.305][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.313][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.413][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.475][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[2025-11-14 21:40:30.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.485][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.497][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.519][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[2025-11-14 21:40:30.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:30.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:30.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:30.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:30.633][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:30.636][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:30.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:30.685][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-14 21:40:30.719][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-14 21:40:30.727][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:30.732][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-14 21:40:30.736][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:30.740][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:30.743][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:30.747][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:30.750][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:30.752][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-14 21:40:30.755][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-14 21:40:30.758][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:30.761][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:30.765][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-14 21:40:30.767][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-14 21:40:30.769][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-14 21:40:30.772][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:30.775][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:30.775][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:30.775][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:30.778][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-14 21:40:30.780][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:30.783][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:30.787][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:30.790][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:30.793][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:30.796][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:30.799][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-14 21:40:30.799][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-14 21:40:30.802][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:30.804][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:30.807][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:30.809][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-14 21:40:30.809][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-14 21:40:30.844][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-14 21:40:30.853][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-14 21:40:30.861][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-14 21:40:30.870][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-14 21:40:30.879][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-14 21:40:30.886][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-14 21:40:31.060][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-14 21:40:31.184][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-14 21:40:31.266][biodb::testThat]
biodb.INFO [2025-11-14 21:40:31.277][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-11-14 21:40:31.292][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:31.306][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:31.341][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-11-14 21:40:31.361][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:31.407][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:31.477][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:31.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:31.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:31.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:31.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:31.679][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:31.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:31.757][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:31.784][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:31.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:31.811][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:31.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:31.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:31.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:31.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:31.989][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:31.995][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:32.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.008][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.161][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:32.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:32.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.202][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:32.222][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:32.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.253][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.274][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:32.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:32.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.326][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:32.345][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:32.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.515][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.532][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:32.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:32.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.567][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:32.571][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:32.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.579][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.585][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:32.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:32.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.601][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:32.605][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:32.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.617][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.637][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:32.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:32.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.683][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:32.698][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:32.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.720][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.741][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:32.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:32.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.765][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:32.771][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:32.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.780][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:32.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:32.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.823][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:32.841][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:32.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.867][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.877][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:32.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:32.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.898][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:32.902][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:32.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.911][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.916][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:32.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:32.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.932][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:32.936][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:32.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.942][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.948][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:32.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:32.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:32.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:32.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:32.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:32.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:32.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:33.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:33.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:33.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:33.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:33.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:33.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:33.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:33.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:33.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:33.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:33.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:33.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:33.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:33.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:33.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:33.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:33.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:33.639][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-11-14 21:40:33.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:33.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:33.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:33.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:33.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.877][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:33.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.893][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:33.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:33.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:33.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:33.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:33.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.968][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-14 21:40:33.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-14 21:40:33.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.984][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-14 21:40:33.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-14 21:40:33.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:33.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:33.998][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-14 21:40:34.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-14 21:40:34.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.014][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-14 21:40:34.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-14 21:40:34.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.529][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.701][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.710][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.725][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.732][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:34.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:34.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.849][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:34.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:34.892][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:34.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.218][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:35.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:35.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.297][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:35.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:35.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.312][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:35.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:35.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.324][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:35.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:35.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.339][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:35.343][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:35.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.349][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.352][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:35.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.425][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:35.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:35.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.446][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:35.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:35.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:35.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:35.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.482][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:35.487][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:35.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.504][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.514][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:35.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:35.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.744][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.785][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.793][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.818][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.831][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:35.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.958][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.961][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.965][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:35.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:35.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:35.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.054][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:36.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.097][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:36.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:36.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.128][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:36.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:36.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.146][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:36.151][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:36.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.164][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.171][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:36.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:36.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.271][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.321][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.373][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.415][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.430][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.525][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:36.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.609][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.680][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.723][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.750][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.761][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.772][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.786][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.800][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:36.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.964][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:36.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:36.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:36.986][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:36.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:36.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:36.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.003][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:37.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:37.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.038][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:37.055][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:37.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.080][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:37.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:37.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.283][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.353][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.415][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.459][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.465][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.490][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:37.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:37.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:37.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.580][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:37.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:37.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:37.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:37.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.618][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:37.623][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:37.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.631][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:37.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:37.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.708][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:37.728][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:37.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.759][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.815][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:37.830][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:37.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.862][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:37.915][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:37.938][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:37.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:37.963][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.015][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:38.029][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:38.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.054][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.102][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:38.115][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:38.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.142][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.182][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:38.196][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:38.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.218][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.262][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:38.354][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:38.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.395][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:38.401][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:38.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.411][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.433][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-11-14 21:40:38.440][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:38.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.450][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.474][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:38.480][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:38.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.488][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.508][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:38.513][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:38.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.521][ef$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:38.558][biodb::testThat]
biodb.INFO [2025-11-14 21:40:38.568][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-11-14 21:40:38.573][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:38.578][biodb::testThat]
biodb.DEBUG[2025-11-14 21:40:38.623][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-11-14 21:40:38.634][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:38.647][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:38.660][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-11-14 21:40:38.665][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:38.733][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:38.739][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:38.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:38.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:38.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:38.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:38.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:38.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:38.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:38.803][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:38.808][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:38.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.817][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:38.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:38.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.895][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:38.901][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:38.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.909][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.913][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:38.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:38.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.926][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:38.930][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:38.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.936][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.941][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:38.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:38.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.954][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:38.957][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:38.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.962][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.967][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:38.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:38.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:38.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:38.981][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:39.028][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:39.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.039][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.044][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:39.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:39.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.058][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:39.060][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:39.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.065][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.069][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:39.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:39.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.079][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:39.082][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:39.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.086][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.091][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:39.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:39.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.102][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:39.105][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:39.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.110][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:39.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:39.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.125][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:39.128][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:39.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.133][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.139][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:39.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:39.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.154][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:39.158][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:39.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.164][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.169][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:39.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:39.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.186][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:39.191][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:39.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.198][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.204][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:39.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:39.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.220][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:39.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:39.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:39.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:39.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:39.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:39.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.264][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:39.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.278][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:39.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:39.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:39.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:39.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:39.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:39.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:39.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:39.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:39.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.345][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:39.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:39.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:39.357][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-11-14 21:40:39.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-11-14 21:40:39.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-11-14 21:40:39.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-11-14 21:40:39.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-11-14 21:40:39.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-11-14 21:40:39.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-11-14 21:40:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:39.471][biodb::testThat]
biodb.INFO [2025-11-14 21:40:39.477][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-11-14 21:40:39.483][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:39.487][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:39.507][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:39.513][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:39.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.522][ef$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:39.528][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-11-14 21:40:39.735][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:39.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:39.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:39.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:39.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:39.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:39.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:39.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:39.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:39.838][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-11-14 21:40:39.860][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-14 21:40:39.923][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:39.938][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-14 21:40:39.944][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:40.018][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 [2025-11-14 21:40:40.223][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:40.243][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-14 21:40:40.251][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:40.266][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-11-14 21:40:40.371][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:40.377][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:40.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:40.389][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:40.402][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:40.413][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:40.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:40.423][ef$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:40.440][biodb::testThat]
biodb.INFO [2025-11-14 21:40:40.448][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-11-14 21:40:40.456][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:40.460][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:40.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:40.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:40.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:40.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:40.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:40.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:40.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:40.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:40.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:40.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:40.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:40.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:40.971][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 [2025-11-14 21:40:40.981][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:40.992][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-14 21:40:40.998][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-14 21:40:41.057][biodb::testThat]
biodb.INFO [2025-11-14 21:40:41.062][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-11-14 21:40:41.065][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:41.068][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:41.140][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:41.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:41.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.160][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:41.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:41.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:41.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:41.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:41.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:41.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:41.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:41.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:41.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:41.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.223][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-14 21:40:41.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-14 21:40:41.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.234][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-14 21:40:41.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-14 21:40:41.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.246][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-14 21:40:41.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-14 21:40:41.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.289][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-14 21:40:41.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-14 21:40:41.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.362][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:41.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:41.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:41.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:41.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:41.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:41.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:41.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:41.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:41.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:41.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:41.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:41.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.442][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-14 21:40:41.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-14 21:40:41.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.452][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-11-14 21:40:41.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-11-14 21:40:41.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.463][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-11-14 21:40:41.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-11-14 21:40:41.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:41.474][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-11-14 21:40:41.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-11-14 21:40:41.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:41.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:41.504][biodb::testThat]
biodb.INFO [2025-11-14 21:40:41.508][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-11-14 21:40:41.512][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:41.516][biodb::testThat]
biodb.INFO [2025-11-14 21:40:41.548][biodb::testThat]
biodb.INFO [2025-11-14 21:40:41.554][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-11-14 21:40:41.559][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:41.563][biodb::testThat]
biodb.INFO [2025-11-14 21:40:41.593][biodb::testThat]
biodb.INFO [2025-11-14 21:40:41.598][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-11-14 21:40:41.602][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:41.606][biodb::testThat]
biodb.DEBUG[2025-11-14 21:40:41.624][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-11-14 21:40:42.695][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-11-14 21:40:43.154][biodb::testThat]
biodb.INFO [2025-11-14 21:40:43.159][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-11-14 21:40:43.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:43.167][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:43.190][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:43.194][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:43.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:43.201][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:43.205][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:43.208][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:43.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:43.214][ef$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:43.219][biodb::testThat]
biodb.INFO [2025-11-14 21:40:43.221][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-11-14 21:40:43.224][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:43.227][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:43.266][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:43.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:43.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:43.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:43.284][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:43.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:43.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:43.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:43.298][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:43.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:43.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:43.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:43.595][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 [2025-11-14 21:40:43.602][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:43.608][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-14 21:40:43.611][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:43.903][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 [2025-11-14 21:40:43.915][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:43.926][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-14 21:40:43.932][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-14 21:40:43.988][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-14 21:40:43.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-14 21:40:43.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.055][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.064][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:44.087][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 [2025-11-14 21:40:44.093][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:44.098][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-14 21:40:44.101][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:44.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:44.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:44.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:44.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:44.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:44.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:44.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:44.129][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-11-14 21:40:44.237][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:44.242][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:44.249][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-11-14 21:40:44.252][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:44.256][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:44.259][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:44.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:44.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:44.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:44.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:44.285][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:44.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:44.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:44.295][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.298][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.301][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.312][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:44.315][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:44.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.319][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.322][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:44.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:44.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.330][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:44.332][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:44.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.335][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:44.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:44.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.347][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:44.349][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:44.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.353][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.355][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:44.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:44.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.363][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:44.365][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:44.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:44.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:44.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.379][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:44.381][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:44.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.385][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.390][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:44.393][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.398][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.402][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:44.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.412][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:44.414][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:44.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.418][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:44.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:44.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.428][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:44.430][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:44.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.433][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.436][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:44.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:44.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.447][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:44.449][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:44.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.458][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:44.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:44.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.470][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:44.473][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:44.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.478][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.482][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:44.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:44.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:44.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:44.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.504][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:44.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:44.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:44.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:44.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:44.624][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-11-14 21:40:44.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:44.678][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:44.684][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:44.689][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-14 21:40:44.692][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:44.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:44.739][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:44.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:44.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:44.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:44.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:44.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:44.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.786][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:44.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:44.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:44.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:44.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:44.812][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:44.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:44.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:44.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:44.823][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-11-14 21:40:44.826][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:44.831][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:44.838][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-11-14 21:40:44.841][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:44.844][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:44.847][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:44.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:44.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:44.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:44.869][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:44.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:44.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:44.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:44.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.886][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.890][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:44.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:44.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.902][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:44.904][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:44.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.908][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.911][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:44.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:44.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.942][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:44.947][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:44.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.953][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.958][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:44.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:44.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.969][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:44.971][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:44.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.975][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.978][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:44.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:44.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.986][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:44.989][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:44.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:44.992][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:44.995][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:44.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:44.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.003][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:45.005][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:45.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.009][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.012][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:45.014][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.018][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.021][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:45.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.030][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:45.032][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:45.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.035][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:45.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:45.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.046][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:45.048][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:45.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.052][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.055][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:45.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:45.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.064][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:45.066][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:45.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.070][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.073][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:45.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:45.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.081][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:45.083][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:45.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.087][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.089][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:45.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:45.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.098][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.116][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.125][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.142][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.159][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.175][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:45.183][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-11-14 21:40:45.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:45.255][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 [2025-11-14 21:40:45.263][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:45.297][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-14 21:40:45.304][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:45.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:45.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:45.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:45.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:45.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:45.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:45.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:45.349][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:45.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:45.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:45.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:45.400][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:45.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:45.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:45.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:45.413][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-11-14 21:40:45.417][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:45.422][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:45.430][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-11-14 21:40:45.434][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:45.438][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:45.442][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:45.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:45.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:45.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:45.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:45.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:45.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:45.478][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[2025-11-14 21:40:45.485][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.489][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.494][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.510][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:45.513][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:45.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.517][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.521][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:45.524][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:45.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.528][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.532][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:45.535][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:45.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.539][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.542][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:45.544][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:45.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.549][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.552][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:45.554][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:45.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.558][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.561][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:45.564][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.567][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.570][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:45.573][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:45.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.577][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.580][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:45.582][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:45.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.586][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.589][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:45.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:45.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.598][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:45.600][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:45.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.604][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:45.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:45.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.615][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:45.617][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:45.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.620][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.634][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:45.693][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-11-14 21:40:45.695][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.700][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.711][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.717][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:45.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:45.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:45.726][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:45.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:45.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:45.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:45.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:45.741][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-11-14 21:40:45.742][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:45.744][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:45.750][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-11-14 21:40:45.751][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:45.753][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:45.755][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:45.758][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:45.759][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:45.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:45.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:45.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:45.773][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:45.774][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:45.779][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.780][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.783][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.792][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:45.794][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:45.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.797][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.799][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:45.801][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:45.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.804][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.806][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:45.807][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:45.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.810][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.812][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:45.813][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:45.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.815][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.817][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:45.819][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:45.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.821][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.823][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:45.825][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.827][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.829][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:45.830][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:45.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.833][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.835][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:45.836][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:45.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.839][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.842][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:45.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:45.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.848][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:45.849][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:45.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.852][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.854][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:45.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:45.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.859][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:45.861][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:45.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.863][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.865][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.876][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:45.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.918][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:45.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:45.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:45.933][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-11-14 21:40:45.934][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.940][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.951][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:45.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:45.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:45.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:45.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:45.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:45.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:45.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:45.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:45.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:45.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:45.982][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-11-14 21:40:45.984][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:45.986][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:45.991][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-11-14 21:40:45.993][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:45.995][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:45.997][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:45.999][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:46.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:46.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:46.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:46.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:46.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:46.014][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.TRACE[2025-11-14 21:40:46.020][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.022][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.024][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.032][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:46.033][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:46.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.036][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.038][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:46.040][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:46.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.042][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.045][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:46.047][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:46.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.049][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.056][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.058][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.059][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.062][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.064][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:46.065][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.068][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.070][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.071][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.073][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.075][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:46.077][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:46.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.079][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:46.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:46.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.088][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:46.089][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:46.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.092][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.093][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:46.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:46.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.099][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:46.101][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:46.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.103][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.145][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.166][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:46.171][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-11-14 21:40:46.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:46.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:46.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:46.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:46.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:46.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:46.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:46.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:46.218][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-11-14 21:40:46.219][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:46.222][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:46.229][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-11-14 21:40:46.230][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:46.233][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:46.235][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:46.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:46.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:46.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:46.249][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:46.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:46.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:46.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:46.257][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.259][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.262][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.270][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:46.272][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:46.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.274][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.277][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:46.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:46.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.283][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:46.285][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:46.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.287][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.290][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:46.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:46.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.296][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:46.297][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:46.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.300][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:46.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:46.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.307][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.309][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.311][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.313][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.319][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.320][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.322][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.324][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.330][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:46.331][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.334][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.336][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:46.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.341][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.345][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.364][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:46.366][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:46.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.368][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.371][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:46.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:46.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.376][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:46.378][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:46.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.380][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.382][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:46.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:46.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.387][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:46.388][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:46.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.391][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.393][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:46.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:46.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:46.451][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-11-14 21:40:46.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:46.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:46.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:46.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:46.479][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:46.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:46.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:46.483][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[2025-11-14 21:40:46.484][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-11-14 21:40:46.486][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:46.488][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:46.494][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-11-14 21:40:46.495][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:46.497][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:46.499][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:46.501][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:46.502][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:46.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:46.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:46.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:46.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:46.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:46.518][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.520][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.522][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.524][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.530][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:46.531][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:46.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.533][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.535][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:46.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:46.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.540][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:46.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:46.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.544][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.546][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:46.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:46.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.552][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:46.553][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:46.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.555][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.557][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:46.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:46.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.563][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.578][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.581][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.589][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.590][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.592][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.594][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.600][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:46.601][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.604][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.606][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:46.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.611][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.613][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.616][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.623][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:46.625][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:46.626][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.627][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.630][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:46.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:46.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.635][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:46.637][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:46.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.640][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.642][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:46.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:46.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.648][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:46.649][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:46.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.652][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.654][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:46.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:46.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:46.721][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-11-14 21:40:46.722][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.728][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.734][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:46.740][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:46.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:46.743][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:46.751][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:46.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:46.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:46.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:46.758][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-11-14 21:40:46.760][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:46.763][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:46.769][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-11-14 21:40:46.771][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:46.773][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:46.775][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:46.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:46.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:46.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:46.787][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:46.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:46.790][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:46.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:46.795][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.797][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.815][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.818][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.824][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:46.825][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:46.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.827][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.829][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:46.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:46.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.834][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:46.835][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:46.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.837][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.839][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:46.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:46.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.844][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:46.845][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:46.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.847][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.849][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:46.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:46.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.854][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.855][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.858][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.859][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:46.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.865][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.866][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:46.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.868][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.870][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:46.871][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.874][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.875][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:46.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.879][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.881][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.882][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.884][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:46.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.891][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:46.892][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:46.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.894][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.897][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:46.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:46.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.902][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:46.904][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:46.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.907][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.909][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:46.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.914][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:46.916][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:46.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.918][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.920][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:46.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.926][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.937][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.942][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:46.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.967][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:46.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:46.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:46.978][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-11-14 21:40:46.979][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:46.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:46.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:46.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:46.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:46.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:46.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:47.024][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-11-14 21:40:47.026][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:47.027][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:47.033][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-11-14 21:40:47.034][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:47.036][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:47.037][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:47.040][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.041][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.052][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.054][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[2025-11-14 21:40:47.057][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.058][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.060][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.067][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.069][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.071][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.073][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.078][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:47.080][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:47.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.082][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.084][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:47.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:47.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.089][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:47.091][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:47.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.093][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:47.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:47.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.100][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.102][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.104][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.106][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.111][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:47.112][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:47.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.114][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.116][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:47.118][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.120][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.122][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:47.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.127][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.128][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.131][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.137][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:47.139][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:47.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.141][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:47.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:47.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.148][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:47.149][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:47.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.151][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.153][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:47.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:47.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.157][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:47.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:47.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.161][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.163][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:47.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:47.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:47.222][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-11-14 21:40:47.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:47.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:47.249][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-11-14 21:40:47.250][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:47.251][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:47.256][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-11-14 21:40:47.257][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:47.258][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:47.260][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:47.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:47.275][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.277][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.279][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.284][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.285][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.287][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.289][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.294][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:47.295][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:47.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.297][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.298][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:47.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:47.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.303][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:47.304][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:47.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.306][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.307][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:47.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:47.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.311][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.312][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.314][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.316][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.320][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:47.321][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:47.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.323][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.324][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:47.326][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.327][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.329][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:47.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.333][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.335][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.337][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.342][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:47.343][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:47.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.345][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:47.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:47.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.351][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:47.352][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:47.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.354][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.355][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:47.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:47.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.360][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:47.361][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:47.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.363][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.364][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:47.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:47.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.419][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.435][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:47.439][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-11-14 21:40:47.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:47.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:47.464][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-11-14 21:40:47.465][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:47.466][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:47.470][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-11-14 21:40:47.471][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:47.473][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:47.474][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:47.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:47.488][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.489][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.491][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.497][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.498][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.500][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.501][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.505][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:47.506][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:47.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.508][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.510][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:47.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:47.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.514][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:47.515][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:47.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.517][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:47.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:47.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.523][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.524][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.526][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.527][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.531][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:47.532][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:47.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.534][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.535][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:47.536][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.538][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.539][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:47.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.544][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.545][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.547][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.559][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:47.560][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:47.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.562][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.563][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:47.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:47.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.567][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:47.568][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:47.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.570][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.572][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:47.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:47.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.576][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:47.577][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:47.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.579][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.580][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:47.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:47.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.622][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:47.626][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-11-14 21:40:47.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.631][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:47.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:47.650][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-11-14 21:40:47.651][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:47.653][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:47.657][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-11-14 21:40:47.658][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:47.659][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:47.660][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:47.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.669][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:47.674][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.675][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.677][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.678][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.682][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.683][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.685][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.686][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.690][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:47.691][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:47.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.693][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.695][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:47.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:47.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.699][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:47.700][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:47.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.701][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:47.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:47.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.707][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.708][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.714][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:47.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.719][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:47.720][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:47.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.722][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.723][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:47.724][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.726][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.727][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:47.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.731][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.732][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.734][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.735][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:47.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.739][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:47.740][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:47.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.742][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.743][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:47.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:47.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.747][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:47.748][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:47.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.750][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.751][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:47.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:47.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.755][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:47.756][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:47.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.758][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.759][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:47.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:47.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.775][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:47.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.794][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:47.805][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-11-14 21:40:47.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.813][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:47.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:47.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.842][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[2025-11-14 21:40:47.844][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-11-14 21:40:47.846][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:47.849][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:47.856][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-11-14 21:40:47.863][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:47.865][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:47.867][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:47.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:47.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:47.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:47.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:47.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:47.909][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:47.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:47.917][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.922][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.929][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:47.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:47.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.970][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.977][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:47.985][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:47.990][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:47.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:47.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.010][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.013][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.018][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.025][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.036][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:48.038][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:48.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.046][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.050][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.053][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.057][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.059][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.065][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.067][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.069][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.072][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.074][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.081][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.085][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.095][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.097][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.100][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.103][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.120][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.122][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.129][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.136][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.157][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:48.159][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:48.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.170][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.221][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.259][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-11-14 21:40:48.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.290][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:48.291][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-11-14 21:40:48.293][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:48.295][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:48.299][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-11-14 21:40:48.301][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:48.303][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:48.305][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:48.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.324][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:48.332][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.334][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.336][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.344][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:48.345][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:48.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.348][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.350][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:48.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:48.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.356][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.357][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.360][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.362][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.366][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:48.367][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:48.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.369][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.370][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.371][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.373][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.374][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.375][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.377][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.378][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.379][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.381][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.382][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.386][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.387][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.389][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.394][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.395][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.397][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.398][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.402][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.403][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.405][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.406][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.410][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:48.411][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:48.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.413][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.418][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.452][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-11-14 21:40:48.453][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.456][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.460][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.472][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[2025-11-14 21:40:48.478][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-11-14 21:40:48.479][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:48.481][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:48.485][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-11-14 21:40:48.486][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:48.487][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:48.488][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:48.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.495][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.497][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:48.500][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.501][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.503][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.508][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:48.509][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:48.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.511][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.512][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:48.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:48.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.516][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.517][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.519][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.520][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.524][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:48.525][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:48.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.527][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.528][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:48.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:48.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.532][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.533][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.535][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.536][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.540][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.541][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.543][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.544][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.545][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.547][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.548][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.552][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.553][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.555][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.560][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.561][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.562][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.564][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.568][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.569][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.570][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.571][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.575][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:48.576][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:48.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.578][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.579][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:48.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:48.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.595][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.606][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.627][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-11-14 21:40:48.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.640][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.648][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:48.649][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-11-14 21:40:48.650][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:48.652][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:48.656][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-11-14 21:40:48.657][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:48.658][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:48.659][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:48.661][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.669][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:48.672][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.673][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.675][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.680][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:48.681][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:48.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.682][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.684][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:48.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:48.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.688][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.689][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.691][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.692][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.696][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:48.697][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:48.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.699][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:48.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:48.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.704][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.705][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.706][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.712][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.713][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.714][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.716][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.717][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.718][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.720][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.724][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.725][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.727][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.732][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.733][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.735][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.736][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.740][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.741][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.744][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.748][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:48.749][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:48.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.751][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.752][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:48.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:48.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.756][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.799][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-11-14 21:40:48.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.804][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.808][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.818][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.820][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.821][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[2025-11-14 21:40:48.822][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-11-14 21:40:48.823][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:48.824][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:48.829][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-11-14 21:40:48.830][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:48.831][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:48.832][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:48.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.835][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.840][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.841][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.842][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.843][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:48.845][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.846][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.848][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.853][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:48.854][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:48.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.855][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.857][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:48.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:48.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.860][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.861][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.863][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.864][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:48.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:48.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.868][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:48.869][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:48.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.871][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:48.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:48.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.876][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.877][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.879][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:48.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.884][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.885][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:48.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.887][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.888][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.889][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.891][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.892][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:48.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.896][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.897][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.899][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:48.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.904][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.905][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.906][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.907][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:48.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:48.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.917][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.919][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.920][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.922][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:48.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:48.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.926][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:48.927][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:48.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.928][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.930][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:48.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:48.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:48.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:48.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:48.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.972][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-11-14 21:40:48.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:48.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:48.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:48.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:48.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:48.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:48.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:48.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:48.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:48.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:48.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:48.995][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-11-14 21:40:48.996][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:48.998][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:49.002][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-11-14 21:40:49.003][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:49.004][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:49.005][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:49.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.008][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.009][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:49.018][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.019][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.020][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.021][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.026][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:49.027][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:49.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.029][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.030][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:49.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:49.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.034][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:49.035][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:49.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.037][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.039][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:49.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:49.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.043][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:49.044][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:49.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.046][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.047][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:49.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:49.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.051][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.052][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.054][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.064][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:49.065][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:49.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.067][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.069][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:49.070][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.072][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.073][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:49.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.077][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.078][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.080][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.081][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.086][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:49.087][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:49.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.088][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:49.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:49.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.094][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:49.095][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:49.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.097][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.098][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:49.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:49.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.102][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:49.103][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:49.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.105][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.106][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:49.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:49.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.114][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.148][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-11-14 21:40:49.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:49.171][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-11-14 21:40:49.172][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:49.173][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:49.177][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-11-14 21:40:49.178][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:49.179][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:49.180][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:49.182][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.183][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:49.193][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.194][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.196][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.201][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:49.202][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:49.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.204][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.205][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:49.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:49.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.214][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:49.215][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:49.216][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.217][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.218][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:49.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:49.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.222][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:49.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:49.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.225][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:49.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:49.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.230][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.231][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.232][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:49.238][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:49.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.240][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.241][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:49.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.244][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.245][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:49.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.249][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.250][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.252][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.257][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:49.258][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:49.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.260][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.261][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:49.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:49.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.265][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:49.266][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:49.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.268][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.269][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:49.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:49.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.273][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:49.274][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:49.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.276][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.277][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:49.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:49.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.281][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.319][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-11-14 21:40:49.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.332][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.333][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.340][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:49.342][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-11-14 21:40:49.342][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:49.344][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:49.347][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-11-14 21:40:49.348][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:49.354][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:49.355][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:49.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:49.369][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.370][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.371][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:49.377][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:49.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.379][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.381][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:49.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:49.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.384][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:49.385][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:49.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.387][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.389][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:49.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:49.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.393][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:49.394][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:49.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.396][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:49.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:49.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.401][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.402][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.404][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.410][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:49.411][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:49.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.412][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.414][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:49.415][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.417][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.418][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:49.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.422][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.423][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.425][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.430][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:49.431][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:49.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.433][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:49.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:49.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.438][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:49.439][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:49.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.441][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.442][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:49.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:49.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:49.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:49.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.449][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.450][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:49.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:49.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.461][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.469][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.473][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.492][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-11-14 21:40:49.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.503][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.511][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.512][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.520][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[2025-11-14 21:40:49.521][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-11-14 21:40:49.522][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:49.523][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:49.527][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-11-14 21:40:49.528][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:49.529][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:49.530][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:49.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:49.543][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.544][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.546][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.551][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:49.553][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:49.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.554][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.556][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:49.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:49.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.560][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:49.561][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:49.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.563][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.564][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:49.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:49.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.568][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:49.569][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:49.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.571][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:49.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:49.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.577][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.579][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.581][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:49.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.585][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:49.586][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:49.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.587][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.589][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:49.590][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.592][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.593][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:49.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.597][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.598][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.600][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.601][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:49.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.605][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:49.606][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:49.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.608][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:49.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:49.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.613][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:49.614][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:49.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.616][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.617][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:49.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:49.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.621][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:49.622][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:49.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.624][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.625][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:49.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:49.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:49.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.673][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:49.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:49.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.686][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-11-14 21:40:49.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.694][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.701][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:49.807][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:49.814][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:49.823][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-14 21:40:49.828][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:49.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.858][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.862][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:49.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.872][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:49.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.907][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:49.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:49.945][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:49.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:49.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:49.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:49.952][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:49.987][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:49.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:49.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:49.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:49.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.030][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.060][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.097][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.185][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.200][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.212][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.247][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.250][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.271][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.289][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.333][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.334][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.344][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.348][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.379][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.388][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.394][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.421][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.458][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.463][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.504][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.513][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.517][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.570][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.571][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.572][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.578][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.584][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.588][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:50.657][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:50.660][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:50.662][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-11-14 21:40:50.664][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:50.667][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:50.670][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:50.673][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-11-14 21:40:50.674][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:50.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.678][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:50.689][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-11-14 21:40:50.690][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:50.692][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:50.696][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-11-14 21:40:50.697][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:50.699][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:50.700][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:50.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.714][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.715][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.717][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.723][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:50.724][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:50.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.726][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.727][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:50.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:50.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.732][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:50.733][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:50.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.735][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.736][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:50.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:50.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.740][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:50.741][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:50.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.743][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.745][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:50.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:50.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.749][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:50.750][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:50.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.752][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.753][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:50.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:50.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.757][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:50.758][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:50.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.760][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.762][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:50.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:50.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.766][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:50.767][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.769][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.771][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:50.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.775][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.776][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.778][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.784][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:50.793][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:50.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.796][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.798][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:50.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:50.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.802][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:50.803][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:50.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.805][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.806][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:50.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:50.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.810][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:50.811][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:50.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.813][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.815][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:50.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:50.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:50.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:50.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:50.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:50.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:50.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:50.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.861][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-11-14 21:40:50.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.881][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.883][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.884][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.TRACE[2025-11-14 21:40:50.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:50.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.903][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:50.907][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-11-14 21:40:50.908][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:50.910][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:50.914][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-11-14 21:40:50.915][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:50.916][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:50.917][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:50.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:50.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:50.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:50.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:50.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:50.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:50.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:50.931][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.932][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.934][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:50.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:50.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.940][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:50.941][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:50.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.950][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.951][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:50.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:50.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.956][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:50.957][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:50.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.959][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.960][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:50.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:50.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.964][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:50.965][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:50.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.967][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.968][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:50.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:50.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.972][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:50.973][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:50.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.975][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.976][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:50.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:50.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.980][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:50.982][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:50.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.984][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.985][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:50.986][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.988][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.989][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:50.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:50.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.993][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.994][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:50.996][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:50.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:50.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.001][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:51.002][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:51.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.004][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.005][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:51.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:51.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.009][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:51.010][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:51.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.012][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.014][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:51.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:51.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.017][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:51.018][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:51.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.020][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.022][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:51.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:51.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:51.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:51.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:51.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:51.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:51.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:51.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:51.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:51.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:51.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:51.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:51.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:51.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:51.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:51.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:51.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:51.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:51.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:51.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:51.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:51.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.064][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-11-14 21:40:51.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:51.098][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:51.100][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:51.104][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-14 21:40:51.105][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:51.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.108][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.143][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.166][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.167][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.184][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.245][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.249][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.294][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.316][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.333][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.366][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.372][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.376][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.380][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.381][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.382][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.400][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.418][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.444][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.495][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.502][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.503][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.550][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.559][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.564][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.732][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.762][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:51.839][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:51.846][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:51.852][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-11-14 21:40:51.855][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:51.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.913][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:51.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:51.945][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:51.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:51.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:51.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:51.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:51.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:51.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.976][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:51.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:51.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:51.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.003][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.046][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.054][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.091][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.093][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.107][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.141][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.150][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.154][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.164][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.165][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.212][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.214][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.232][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.234][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.249][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.271][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.306][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.308][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.324][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.406][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.434][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-14 21:40:52.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-14 21:40:52.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:52.445][biodb::testThat]
biodb.INFO [2025-11-14 21:40:52.452][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-11-14 21:40:52.453][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:52.454][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:52.458][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-14 21:40:52.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-14 21:40:52.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.466][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.473][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.480][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.481][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.482][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:52.493][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:52.497][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:52.499][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-14 21:40:52.500][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:52.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.521][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:52.531][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:52.534][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:52.536][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-14 21:40:52.537][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:52.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.541][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.557][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.561][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:52.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.592][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-14 21:40:52.593][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.594][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.614][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.615][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:52.624][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:52.626][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:52.627][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.628][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.630][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.632][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.633][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.634][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.635][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.636][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.637][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.638][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.639][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.643][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.644][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:52.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.666][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-14 21:40:52.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.678][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[2025-11-14 21:40:52.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.687][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.688][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:52.689][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:52.690][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:52.691][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.692][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.693][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.695][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.699][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.700][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.701][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.702][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.703][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.705][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.706][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:52.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.719][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-14 21:40:52.720][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.739][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.740][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:52.741][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:52.742][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:52.743][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.745][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.747][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.748][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.751][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.752][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.753][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:52.754][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.755][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.757][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.758][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:52.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:52.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.779][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-14 21:40:52.780][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-14 21:40:52.781][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-14 21:40:52.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.799][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:52.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.894][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:52.906][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:52.911][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:52.919][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-14 21:40:52.921][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:52.927][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:52.932][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:52.940][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-14 21:40:52.945][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:52.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:52.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:52.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:52.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:52.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:52.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:52.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:52.979][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:52.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:52.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:52.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.087][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.168][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-14 21:40:53.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.238][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.240][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.253][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.261][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.263][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:53.264][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:53.266][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:53.267][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.269][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.271][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.273][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.275][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.276][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.290][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.294][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.296][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.297][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.300][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.301][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:53.303][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.321][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-14 21:40:53.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.323][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.333][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.334][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.336][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.409][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.411][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:53.412][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:53.414][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:53.416][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.417][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.419][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.422][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.423][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.425][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.428][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.429][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.448][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.449][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.450][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.452][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.453][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:53.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.467][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-14 21:40:53.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.475][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.476][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.494][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:53.495][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:53.496][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:53.497][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.498][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.501][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.502][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.503][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.505][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.506][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.507][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.508][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.509][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.511][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.512][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:53.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.526][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-14 21:40:53.527][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-14 21:40:53.528][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-14 21:40:53.537][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-14 21:40:53.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-14 21:40:53.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:53.544][biodb::testThat]
biodb.INFO [2025-11-14 21:40:53.545][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-11-14 21:40:53.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:53.547][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:53.550][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-14 21:40:53.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-14 21:40:53.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.563][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.579][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:53.584][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:53.587][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:53.589][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-14 21:40:53.590][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:53.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.598][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:53.615][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:53.617][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:53.620][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-14 21:40:53.620][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:53.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.636][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.637][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.650][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.651][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.665][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:53.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.673][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-14 21:40:53.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.694][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:53.695][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:53.696][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:53.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.698][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.699][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.701][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.702][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.703][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.705][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.706][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.707][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.709][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.711][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.712][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:53.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.717][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.725][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-14 21:40:53.726][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.744][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.745][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:53.746][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:53.747][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:53.748][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.749][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.750][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.752][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.753][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.754][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.756][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.758][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.760][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.762][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.763][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:53.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.784][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-14 21:40:53.785][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.793][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.803][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.804][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:53.805][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:53.806][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:53.807][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.808][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.811][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.812][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.813][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.815][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.816][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.817][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.818][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.820][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.821][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.822][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:53.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.836][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-14 21:40:53.837][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-14 21:40:53.838][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-14 21:40:53.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:53.879][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:53.881][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:53.883][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-14 21:40:53.884][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:53.888][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:53.891][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:53.894][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-14 21:40:53.895][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:53.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.922][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.923][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.924][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:53.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:53.978][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-14 21:40:53.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:53.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:53.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:53.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:53.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:53.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:53.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:53.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:53.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:53.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:53.998][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:53.999][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.000][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.001][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.003][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.004][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.006][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.007][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.008][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.010][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.011][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.012][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.013][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.016][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.017][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.031][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-14 21:40:54.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.047][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.051][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.052][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.053][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.054][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.055][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.059][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.060][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.061][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.063][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.064][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.065][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.066][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.067][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.068][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.069][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.079][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.089][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-14 21:40:54.090][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.091][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.097][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.109][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.110][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.110][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.111][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.112][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.113][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.116][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.120][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.121][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.122][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.123][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.124][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.126][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.127][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.128][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.132][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.141][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-14 21:40:54.142][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-14 21:40:54.143][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-14 21:40:54.151][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-14 21:40:54.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-14 21:40:54.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:54.158][biodb::testThat]
biodb.INFO [2025-11-14 21:40:54.160][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-11-14 21:40:54.161][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:54.162][biodb::testThat]
biodb.TRACE[2025-11-14 21:40:54.165][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-11-14 21:40:54.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-11-14 21:40:54.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.177][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.181][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:54.189][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.190][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.198][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:54.201][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:54.204][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:54.206][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-11-14 21:40:54.207][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:54.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-11-14 21:40:54.236][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:54.239][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:54.242][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-11-14 21:40:54.243][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:54.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:54.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.271][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.280][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.281][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.290][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:54.295][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-14 21:40:54.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.317][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.318][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.319][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.320][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.321][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.322][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.323][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.325][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.327][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.328][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.330][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.331][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.332][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.333][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.334][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.336][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.337][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.343][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.352][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-11-14 21:40:54.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.360][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.365][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.370][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.376][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.377][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.378][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.379][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.383][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.384][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.385][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.387][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.389][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.390][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.399][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.400][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.403][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.404][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.418][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-14 21:40:54.419][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.420][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.420][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.425][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.437][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.438][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.439][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.440][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.441][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.442][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.443][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.444][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.445][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.447][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.448][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.449][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.450][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.451][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.452][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.455][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.469][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-11-14 21:40:54.470][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-14 21:40:54.470][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-14 21:40:54.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.493][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.497][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:54.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:54.521][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:54.523][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:54.525][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-11-14 21:40:54.526][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:54.529][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:54.531][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:54.534][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-11-14 21:40:54.535][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:54.537][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.538][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.539][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:54.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.570][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.573][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:54.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.592][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:54.607][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-11-14 21:40:54.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.619][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.627][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.628][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.629][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.629][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.630][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.631][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.632][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.633][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.634][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.635][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.636][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.638][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.639][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.640][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.641][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.642][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.644][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.645][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.649][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.657][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-11-14 21:40:54.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.667][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[2025-11-14 21:40:54.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.676][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.677][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.678][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.679][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.685][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.686][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.687][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.690][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.693][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.694][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.695][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.696][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.697][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.699][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.700][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.701][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.713][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-11-14 21:40:54.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.732][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.733][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-11-14 21:40:54.734][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-11-14 21:40:54.735][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-11-14 21:40:54.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.737][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.738][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.740][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.741][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.742][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.744][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.745][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.746][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-11-14 21:40:54.747][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.748][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.749][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.750][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-11-14 21:40:54.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.763][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-11-14 21:40:54.764][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-11-14 21:40:54.765][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-11-14 21:40:54.783][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-11-14 21:40:54.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-11-14 21:40:54.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:54.789][biodb::testThat]
biodb.INFO [2025-11-14 21:40:54.790][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-11-14 21:40:54.791][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:54.792][biodb::testThat]
biodb.DEBUG[2025-11-14 21:40:54.794][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-11-14 21:40:54.795][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:54.796][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:54.799][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-11-14 21:40:54.800][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:54.801][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:54.802][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:54.804][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.805][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.805][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.815][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.816][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.817][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.829][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:54.830][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:54.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.832][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.833][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:54.834][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:54.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.836][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.837][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:54.838][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:54.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.840][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.841][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:54.842][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:54.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.844][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.845][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:54.846][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:54.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.848][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.849][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:54.850][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:54.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.852][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.853][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.854][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:54.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.856][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.857][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:54.858][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:54.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.860][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.862][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:54.863][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:54.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.864][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.866][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:54.867][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:54.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.868][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.873][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:54.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.889][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:54.909][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-11-14 21:40:54.909][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-11-14 21:40:54.917][biodb::testThat]
biodb.INFO [2025-11-14 21:40:54.918][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-11-14 21:40:54.919][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:54.919][biodb::testThat]
biodb.DEBUG[2025-11-14 21:40:54.928][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-11-14 21:40:54.929][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-11-14 21:40:54.930][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-11-14 21:40:54.931][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:54.934][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-11-14 21:40:54.937][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-11-14 21:40:54.941][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-11-14 21:40:54.942][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:54.943][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-11-14 21:40:54.945][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:54.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:54.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:54.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:54.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:54.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:54.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:54.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:54.957][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.958][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.960][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:54.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:54.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:54.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:54.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.168][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:55.170][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:55.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.172][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.173][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:55.174][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:55.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.176][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:55.178][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:55.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.180][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.181][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.182][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.184][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.186][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.187][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.189][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:55.190][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:55.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.191][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.192][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.193][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.195][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.196][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:55.197][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:55.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.199][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.200][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:55.201][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:55.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.203][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.204][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:55.205][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:55.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.207][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:55.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:55.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:55.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:55.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:55.245][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.246][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.247][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.252][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:55.253][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:55.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.255][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.256][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:55.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:55.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.260][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:55.261][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:55.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.263][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.264][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:55.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:55.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.268][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:55.269][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:55.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.271][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.272][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:55.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:55.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.276][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.277][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.279][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.284][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.285][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.287][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.288][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.292][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:55.293][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:55.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.295][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.296][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:55.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:55.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.300][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.301][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.303][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.309][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:55.310][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:55.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.312][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:55.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:55.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.318][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:55.319][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:55.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.321][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.322][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:55.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:55.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:55.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:55.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.329][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.331][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:55.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:55.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.356][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:55.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:55.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:55.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:55.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:55.378][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.379][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.381][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.387][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:55.388][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:55.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.390][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.392][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:55.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:55.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.396][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:55.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:55.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.399][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.401][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:55.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:55.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.405][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:55.406][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:55.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.408][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.410][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:55.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:55.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.414][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.416][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.418][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.419][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:55.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.424][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.425][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.427][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.428][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:55.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.433][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:55.434][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:55.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.436][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.437][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:55.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:55.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.442][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.443][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.445][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.451][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:55.452][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:55.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.454][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.456][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:55.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:55.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.460][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:55.461][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:55.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.463][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.465][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:55.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:55.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.469][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:55.470][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:55.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.473][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.474][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:55.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:55.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.487][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:55.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:55.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:55.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:55.545][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-11-14 21:40:55.546][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-11-14 21:40:55.547][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-11-14 21:40:55.560][biodb::testThat]
biodb.INFO [2025-11-14 21:40:55.561][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-11-14 21:40:55.562][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:55.563][biodb::testThat]
biodb.INFO [2025-11-14 21:40:55.585][biodb::testThat]
biodb.INFO [2025-11-14 21:40:55.587][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-11-14 21:40:55.588][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:55.589][biodb::testThat]
biodb.INFO [2025-11-14 21:40:55.596][biodb::testThat]
biodb.INFO [2025-11-14 21:40:55.598][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-11-14 21:40:55.598][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:55.599][biodb::testThat]
sched.DEBUG[2025-11-14 21:40:55.602][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:55.604][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:55.610][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-11-14 21:40:55.612][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-11-14 21:40:55.624][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:55.626][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:55.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.628][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:55.629][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.630][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:55.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:55.632][ef$get] fields variable is a list.
biodb.INFO [2025-11-14 21:40:55.633][biodb::testThat]
biodb.INFO [2025-11-14 21:40:55.634][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-11-14 21:40:55.635][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:55.636][biodb::testThat]
biodb.ERROR[2025-11-14 21:40:55.650][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-11-14 21:40:55.665][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-11-14 21:40:55.677][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-14 21:40:55.678][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-14 21:40:55.679][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-14 21:40:55.680][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:55.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:55.682][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.684][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-14 21:40:55.695][biodb::testContext]
biodb.INFO [2025-11-14 21:40:55.696][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-14 21:40:55.697][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-11-14 21:40:55.698][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-14 21:40:55.699][biodb::testContext]
biodb.INFO [2025-11-14 21:40:55.701][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-14 21:40:55.703][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-14 21:40:55.707][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:55.708][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-14 21:40:55.709][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-14 21:40:55.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.713][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-14 21:40:55.714][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-14 21:40:55.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.717][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-14 21:40:55.718][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-14 21:40:55.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.721][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[2025-11-14 21:40:55.722][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-14 21:40:55.723][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-14 21:40:55.724][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-14 21:40:55.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.728][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-14 21:40:55.729][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-14 21:40:55.730][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-14 21:40:55.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.733][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-14 21:40:55.734][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-14 21:40:55.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.738][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-14 21:40:55.739][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-14 21:40:55.740][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-14 21:40:55.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.743][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-14 21:40:55.745][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-14 21:40:55.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.748][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-14 21:40:55.749][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-14 21:40:55.750][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-14 21:40:55.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.754][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-14 21:40:55.755][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-14 21:40:55.756][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-14 21:40:55.757][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-14 21:40:55.758][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-14 21:40:55.759][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-14 21:40:55.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.762][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-14 21:40:55.763][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-14 21:40:55.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.766][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[2025-11-14 21:40:55.767][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-14 21:40:55.768][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-14 21:40:55.769][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.771][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-14 21:40:55.773][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-14 21:40:55.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.775][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[2025-11-14 21:40:55.776][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-14 21:40:55.777][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-14 21:40:55.778][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-14 21:40:55.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.781][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-14 21:40:55.782][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-14 21:40:55.786][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-14 21:40:55.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.796][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-14 21:40:55.797][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-14 21:40:55.798][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-14 21:40:55.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.802][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-14 21:40:55.804][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.805][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-14 21:40:55.805][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.806][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:55.807][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.808][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.809][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.810][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.811][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-14 21:40:55.812][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:55.813][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.814][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-14 21:40:55.815][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:55.816][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.817][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.818][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:55.818][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:55.818][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:55.818][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-14 21:40:55.818][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-14 21:40:55.819][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:55.820][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:55.820][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:55.821][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:55.822][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:55.823][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:55.824][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.825][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.826][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:55.827][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:55.828][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.829][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.830][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-14 21:40:55.832][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.833][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-14 21:40:55.834][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.835][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:55.836][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.837][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.838][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.839][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.840][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-14 21:40:55.841][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:55.842][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.843][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-14 21:40:55.844][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:55.845][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.846][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.847][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:55.847][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:55.847][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:55.847][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-14 21:40:55.847][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-14 21:40:55.848][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:55.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:55.850][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:55.851][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:55.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:55.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:55.854][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.855][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.856][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:55.857][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:55.858][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.859][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.860][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-14 21:40:55.862][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.863][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-14 21:40:55.864][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.865][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:55.866][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.867][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.868][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.869][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.870][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-14 21:40:55.871][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:55.872][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.873][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-14 21:40:55.874][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:55.875][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.876][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.877][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.878][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:55.879][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:55.879][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:55.880][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:55.881][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:55.882][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:55.883][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.884][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.885][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:55.886][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:55.887][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.888][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.889][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-14 21:40:55.891][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.892][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-14 21:40:55.893][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.894][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:55.894][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.895][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.896][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.897][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.898][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-14 21:40:55.899][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:55.900][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.901][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-14 21:40:55.902][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:55.903][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.904][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:55.905][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.906][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:55.907][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:55.908][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:55.909][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:55.910][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:55.911][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:55.912][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:55.913][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.913][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:55.914][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:55.915][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:55.916][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:55.917][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:55.918][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.919][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[2025-11-14 21:40:55.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.923][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[2025-11-14 21:40:55.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.928][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[2025-11-14 21:40:55.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.932][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[2025-11-14 21:40:55.933][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.936][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[2025-11-14 21:40:55.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.940][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[2025-11-14 21:40:55.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.945][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[2025-11-14 21:40:55.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.949][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[2025-11-14 21:40:55.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.953][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[2025-11-14 21:40:55.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.983][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[2025-11-14 21:40:55.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:55.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:55.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:55.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:55.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:55.988][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-14 21:40:55.990][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-14 21:40:55.991][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-14 21:40:55.992][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-14 21:40:55.994][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-14 21:40:55.995][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-14 21:40:55.996][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-14 21:40:55.998][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-14 21:40:55.999][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-14 21:40:56.000][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-14 21:40:56.002][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-14 21:40:56.003][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-14 21:40:56.004][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-14 21:40:56.006][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-14 21:40:56.007][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-14 21:40:56.008][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-14 21:40:56.010][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-14 21:40:56.011][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-14 21:40:56.012][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-14 21:40:56.014][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-14 21:40:56.015][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-14 21:40:56.016][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-14 21:40:56.018][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-14 21:40:56.019][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-14 21:40:56.020][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-14 21:40:56.022][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-14 21:40:56.023][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-14 21:40:56.024][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-14 21:40:56.026][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-14 21:40:56.027][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-14 21:40:56.028][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-14 21:40:56.030][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-14 21:40:56.031][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-14 21:40:56.032][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-14 21:40:56.034][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-14 21:40:56.035][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-14 21:40:56.036][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-14 21:40:56.038][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-14 21:40:56.039][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-14 21:40:56.040][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-14 21:40:56.042][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-14 21:40:56.043][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-14 21:40:56.045][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-14 21:40:56.046][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-14 21:40:56.047][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-14 21:40:56.049][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-14 21:40:56.050][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-14 21:40:56.051][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-14 21:40:56.053][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-14 21:40:56.054][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-14 21:40:56.056][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-14 21:40:56.057][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-14 21:40:56.058][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-14 21:40:56.060][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-14 21:40:56.061][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-14 21:40:56.062][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-14 21:40:56.064][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-14 21:40:56.065][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-14 21:40:56.066][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-14 21:40:56.068][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-14 21:40:56.069][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-14 21:40:56.070][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-14 21:40:56.072][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-14 21:40:56.073][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-14 21:40:56.074][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-14 21:40:56.076][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-14 21:40:56.082][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-14 21:40:56.083][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-14 21:40:56.084][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-14 21:40:56.086][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-14 21:40:56.087][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-14 21:40:56.089][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-14 21:40:56.090][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-14 21:40:56.091][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-14 21:40:56.093][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-14 21:40:56.094][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-14 21:40:56.095][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-14 21:40:56.097][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-14 21:40:56.098][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-14 21:40:56.099][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-14 21:40:56.100][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-14 21:40:56.102][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-14 21:40:56.103][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-14 21:40:56.104][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-14 21:40:56.106][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-14 21:40:56.107][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:56.108][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.109][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.109][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.111][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.116][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.DEBUG[2025-11-14 21:40:56.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.118][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.124][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.206][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-14 21:40:56.207][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-14 21:40:56.209][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.210][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.211][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.212][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:56.213][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.214][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.215][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.216][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-14 21:40:56.217][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-14 21:40:56.218][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:56.219][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.219][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-14 21:40:56.220][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-14 21:40:56.221][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-14 21:40:56.223][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.224][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:56.224][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:56.224][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:56.225][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-14 21:40:56.225][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.226][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.227][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:56.228][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.229][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.230][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.231][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-14 21:40:56.231][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-14 21:40:56.232][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:56.233][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:56.234][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.235][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-14 21:40:56.235][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-14 21:40:56.236][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-14 21:40:56.238][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-14 21:40:56.239][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-14 21:40:56.241][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-14 21:40:56.242][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-14 21:40:56.244][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-14 21:40:56.247][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-14 21:40:56.250][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-14 21:40:56.252][biodb::testThat]
biodb.INFO [2025-11-14 21:40:56.253][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-11-14 21:40:56.254][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:56.255][biodb::testThat]
sched.DEBUG[2025-11-14 21:40:56.258][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-14 21:40:56.260][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.266][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-14 21:40:56.267][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:56.270][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 [2025-11-14 21:40:56.273][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.276][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-14 21:40:56.277][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:56.290][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 [2025-11-14 21:40:56.292][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.295][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-14 21:40:56.296][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.297][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.299][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.305][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.331][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:56.339][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 [2025-11-14 21:40:56.342][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.344][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-14 21:40:56.345][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.347][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.348][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.353][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:56.358][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 [2025-11-14 21:40:56.360][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.362][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-14 21:40:56.363][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.366][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:56.395][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 [2025-11-14 21:40:56.398][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.400][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-11-14 21:40:56.401][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.402][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.403][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-11-14 21:40:56.413][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 [2025-11-14 21:40:56.416][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.418][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-11-14 21:40:56.419][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.426][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.428][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.429][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".
sched.DEBUG[2025-11-14 21:40:56.431][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 [2025-11-14 21:40:56.433][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.435][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-11-14 21:40:56.436][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.438][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.444][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.445][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-14 21:40:56.452][biodb::testThat]
biodb.INFO [2025-11-14 21:40:56.453][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-11-14 21:40:56.454][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:56.455][biodb::testThat]
sched.DEBUG[2025-11-14 21:40:56.458][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 [2025-11-14 21:40:56.461][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.463][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-11-14 21:40:56.464][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.472][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.474][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".
sched.DEBUG[2025-11-14 21:40:56.478][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 [2025-11-14 21:40:56.481][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:56.483][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-11-14 21:40:56.484][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:56.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:56.487][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.492][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.493][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.494][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-14 21:40:56.499][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-14 21:40:56.500][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-14 21:40:56.501][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-14 21:40:56.502][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.504][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.505][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-14 21:40:56.510][biodb::testContext]
biodb.INFO [2025-11-14 21:40:56.511][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-14 21:40:56.512][biodb::testContext] Test context - Test web services
biodb.INFO [2025-11-14 21:40:56.513][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-14 21:40:56.513][biodb::testContext]
biodb.INFO [2025-11-14 21:40:56.515][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-14 21:40:56.517][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-14 21:40:56.521][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:56.522][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-14 21:40:56.523][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-14 21:40:56.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.525][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.526][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-14 21:40:56.527][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-14 21:40:56.528][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.530][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[2025-11-14 21:40:56.531][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-14 21:40:56.532][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-14 21:40:56.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.535][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-14 21:40:56.536][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-14 21:40:56.537][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-14 21:40:56.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.541][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-14 21:40:56.542][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-14 21:40:56.543][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-14 21:40:56.544][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.546][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-14 21:40:56.547][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-14 21:40:56.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.551][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-14 21:40:56.552][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-14 21:40:56.553][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-14 21:40:56.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.556][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-14 21:40:56.557][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-14 21:40:56.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.560][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-14 21:40:56.561][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-14 21:40:56.562][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-14 21:40:56.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.566][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-14 21:40:56.567][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-14 21:40:56.568][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-14 21:40:56.569][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-14 21:40:56.570][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-14 21:40:56.571][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-14 21:40:56.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.573][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[2025-11-14 21:40:56.574][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-14 21:40:56.575][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-14 21:40:56.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.579][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-14 21:40:56.580][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-14 21:40:56.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.582][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[2025-11-14 21:40:56.583][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-14 21:40:56.584][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-14 21:40:56.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.588][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-14 21:40:56.589][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-14 21:40:56.590][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-14 21:40:56.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.592][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[2025-11-14 21:40:56.593][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-14 21:40:56.594][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-14 21:40:56.597][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-14 21:40:56.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.601][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-14 21:40:56.602][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-14 21:40:56.603][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-14 21:40:56.604][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.606][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-14 21:40:56.608][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.609][self$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[2025-11-14 21:40:56.610][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.611][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:56.612][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.613][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.614][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.615][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.616][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-14 21:40:56.617][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:56.618][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.619][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-14 21:40:56.620][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:56.621][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.622][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.623][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:56.623][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:56.623][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:56.623][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-14 21:40:56.623][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-14 21:40:56.624][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:56.625][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.625][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.626][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:56.627][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.628][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.629][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.630][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.631][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:56.632][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:56.633][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.634][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.635][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-14 21:40:56.636][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.637][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-14 21:40:56.638][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.639][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:56.640][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.641][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.642][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.643][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.644][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-14 21:40:56.645][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:56.646][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.647][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-14 21:40:56.648][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:56.649][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.650][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.651][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:56.651][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:56.651][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:56.651][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-14 21:40:56.651][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-14 21:40:56.652][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:56.652][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.653][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.654][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:56.655][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.656][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.657][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.658][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.659][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:56.660][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:56.660][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.661][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.663][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-14 21:40:56.664][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.665][self$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[2025-11-14 21:40:56.666][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.667][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:56.668][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.669][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.670][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.671][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.672][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-14 21:40:56.673][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:56.674][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.674][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-14 21:40:56.675][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:56.676][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.677][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.678][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.679][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:56.680][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.681][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.682][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:56.687][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.688][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.689][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.690][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.691][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:56.692][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:56.693][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.693][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.695][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-14 21:40:56.696][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.697][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-14 21:40:56.698][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.699][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:56.700][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.701][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.702][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.703][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.704][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-14 21:40:56.704][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:56.705][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.706][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-14 21:40:56.707][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:56.708][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.709][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:56.710][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.711][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:56.712][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.713][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.713][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:56.714][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:56.715][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:56.716][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:56.717][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.718][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:56.719][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:56.720][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:56.721][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:56.722][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:56.723][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.723][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[2025-11-14 21:40:56.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.728][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.736][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.751][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.752][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.DEBUG[2025-11-14 21:40:56.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.769][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[2025-11-14 21:40:56.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.774][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.777][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[2025-11-14 21:40:56.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.790][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.791][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-14 21:40:56.792][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-14 21:40:56.793][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-14 21:40:56.795][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-14 21:40:56.796][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-14 21:40:56.797][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-14 21:40:56.799][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-14 21:40:56.800][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-14 21:40:56.801][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-14 21:40:56.803][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-14 21:40:56.804][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-14 21:40:56.805][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-14 21:40:56.807][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-14 21:40:56.808][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-14 21:40:56.809][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-14 21:40:56.811][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-14 21:40:56.812][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-14 21:40:56.813][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-14 21:40:56.815][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-14 21:40:56.816][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-14 21:40:56.817][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-14 21:40:56.819][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-14 21:40:56.820][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-14 21:40:56.821][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-14 21:40:56.823][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-14 21:40:56.824][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-14 21:40:56.825][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-14 21:40:56.827][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-14 21:40:56.828][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-14 21:40:56.829][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-14 21:40:56.830][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-14 21:40:56.832][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-14 21:40:56.833][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-14 21:40:56.834][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-14 21:40:56.836][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-14 21:40:56.837][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-14 21:40:56.838][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-14 21:40:56.840][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-14 21:40:56.841][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-14 21:40:56.842][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-14 21:40:56.844][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-14 21:40:56.845][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-14 21:40:56.846][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-14 21:40:56.848][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-14 21:40:56.849][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-14 21:40:56.850][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-14 21:40:56.852][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-14 21:40:56.853][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-14 21:40:56.854][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-14 21:40:56.856][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-14 21:40:56.857][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-14 21:40:56.858][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-14 21:40:56.859][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-14 21:40:56.861][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-14 21:40:56.862][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-14 21:40:56.863][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-14 21:40:56.865][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-14 21:40:56.866][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-14 21:40:56.867][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-14 21:40:56.869][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-14 21:40:56.870][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-14 21:40:56.871][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-14 21:40:56.873][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-14 21:40:56.874][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-14 21:40:56.875][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-14 21:40:56.876][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-14 21:40:56.878][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-14 21:40:56.879][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-14 21:40:56.880][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-14 21:40:56.882][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-14 21:40:56.883][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-14 21:40:56.885][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-14 21:40:56.886][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-14 21:40:56.887][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-14 21:40:56.889][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-14 21:40:56.890][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-14 21:40:56.891][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-14 21:40:56.893][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-14 21:40:56.894][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-14 21:40:56.895][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-14 21:40:56.897][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-14 21:40:56.898][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-14 21:40:56.900][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-14 21:40:56.901][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-14 21:40:56.903][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-14 21:40:56.904][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:56.904][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.906][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.908][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.910][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.914][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.916][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.919][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[2025-11-14 21:40:56.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.923][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.925][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[2025-11-14 21:40:56.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.928][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.931][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[2025-11-14 21:40:56.932][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.936][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.943][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[2025-11-14 21:40:56.944][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.949][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[2025-11-14 21:40:56.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.955][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[2025-11-14 21:40:56.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.974][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.978][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[2025-11-14 21:40:56.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.980][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.983][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[2025-11-14 21:40:56.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.989][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[2025-11-14 21:40:56.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:56.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:56.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:56.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:56.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:56.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:56.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:56.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.001][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.006][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[2025-11-14 21:40:57.008][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-14 21:40:57.009][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-14 21:40:57.011][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.012][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.013][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.013][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:57.014][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.015][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.016][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.017][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-14 21:40:57.018][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-14 21:40:57.019][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:57.020][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.021][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-14 21:40:57.022][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-14 21:40:57.023][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-14 21:40:57.024][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.025][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:57.025][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:57.025][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:57.026][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-14 21:40:57.026][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.027][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.028][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:57.029][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.030][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.031][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.032][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-14 21:40:57.032][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-14 21:40:57.033][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:57.033][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:57.034][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.035][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-14 21:40:57.035][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-14 21:40:57.036][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-14 21:40:57.038][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-14 21:40:57.040][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-14 21:40:57.041][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-14 21:40:57.043][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-14 21:40:57.044][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-14 21:40:57.047][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-14 21:40:57.050][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-14 21:40:57.051][biodb::testThat]
biodb.INFO [2025-11-14 21:40:57.052][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-11-14 21:40:57.053][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:57.054][biodb::testThat]
sched.DEBUG[2025-11-14 21:40:57.056][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-14 21:40:57.058][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:57.064][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-14 21:40:57.065][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:57.068][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-11-14 21:40:57.071][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:57.073][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-14 21:40:57.074][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-11-14 21:40:57.080][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-14 21:40:57.082][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-14 21:40:57.082][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-14 21:40:57.083][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.084][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.085][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.086][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.087][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-11-14 21:40:57.091][biodb::testContext]
biodb.INFO [2025-11-14 21:40:57.092][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-14 21:40:57.093][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-11-14 21:40:57.094][biodb::testContext] ********************************************************************************
biodb.INFO [2025-11-14 21:40:57.095][biodb::testContext]
biodb.INFO [2025-11-14 21:40:57.096][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-11-14 21:40:57.098][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-11-14 21:40:57.102][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:57.103][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-11-14 21:40:57.104][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-11-14 21:40:57.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.107][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-11-14 21:40:57.108][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-11-14 21:40:57.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.112][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-11-14 21:40:57.113][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-11-14 21:40:57.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.116][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-11-14 21:40:57.117][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-11-14 21:40:57.118][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-11-14 21:40:57.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.121][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-11-14 21:40:57.122][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-11-14 21:40:57.123][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-11-14 21:40:57.124][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.127][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-11-14 21:40:57.128][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-11-14 21:40:57.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.131][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-11-14 21:40:57.132][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-11-14 21:40:57.133][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-11-14 21:40:57.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.136][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-11-14 21:40:57.137][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-11-14 21:40:57.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.141][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-11-14 21:40:57.142][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-11-14 21:40:57.143][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-11-14 21:40:57.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.146][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-11-14 21:40:57.147][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-11-14 21:40:57.148][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-11-14 21:40:57.149][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-11-14 21:40:57.150][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-11-14 21:40:57.151][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-11-14 21:40:57.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.155][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-11-14 21:40:57.156][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-11-14 21:40:57.156][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.159][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-11-14 21:40:57.160][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-11-14 21:40:57.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.164][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-11-14 21:40:57.165][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-11-14 21:40:57.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.167][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.168][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-11-14 21:40:57.169][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-11-14 21:40:57.170][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-11-14 21:40:57.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.173][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-11-14 21:40:57.174][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-11-14 21:40:57.178][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-11-14 21:40:57.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.181][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-11-14 21:40:57.182][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-11-14 21:40:57.183][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-11-14 21:40:57.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.187][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-11-14 21:40:57.188][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.189][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-11-14 21:40:57.190][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.191][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:57.192][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.193][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.194][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.195][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.196][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-14 21:40:57.197][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:57.198][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.199][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-11-14 21:40:57.200][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:57.201][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.202][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.203][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:57.203][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:57.203][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:57.203][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-14 21:40:57.203][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-14 21:40:57.204][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:57.205][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.205][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.206][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:57.207][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.208][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.209][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.210][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.211][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:57.212][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:57.213][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.214][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.215][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-11-14 21:40:57.216][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.217][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-11-14 21:40:57.218][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.219][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:57.220][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.221][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.222][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.223][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.224][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-14 21:40:57.225][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:57.226][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.227][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-11-14 21:40:57.228][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:57.229][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.230][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.231][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:57.231][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:57.231][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:57.231][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-11-14 21:40:57.231][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-11-14 21:40:57.232][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:57.233][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.233][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.234][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:57.235][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.236][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.237][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.238][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.239][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:57.240][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:57.241][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.242][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.243][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-11-14 21:40:57.245][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.246][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-11-14 21:40:57.252][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.253][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:57.254][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.255][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.256][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.257][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.258][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-11-14 21:40:57.259][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:57.259][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.260][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-11-14 21:40:57.261][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:57.262][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.263][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.264][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.265][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:57.266][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.267][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.268][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:57.269][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.270][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.271][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.272][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:57.273][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:57.274][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.275][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.276][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-11-14 21:40:57.277][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.278][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-11-14 21:40:57.279][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.280][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:57.281][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.282][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.283][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.284][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.285][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-11-14 21:40:57.286][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:57.287][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.288][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-11-14 21:40:57.289][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:57.289][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.290][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.291][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.292][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-11-14 21:40:57.293][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.294][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.295][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:57.296][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.297][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.297][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.298][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.299][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:57.300][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:57.301][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.302][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-11-14 21:40:57.303][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:57.304][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.310][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.313][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.314][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.315][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.323][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.335][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.341][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.350][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.DEBUG[2025-11-14 21:40:57.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.359][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.370][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.372][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-11-14 21:40:57.374][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-11-14 21:40:57.375][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-11-14 21:40:57.376][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-11-14 21:40:57.378][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-14 21:40:57.379][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-11-14 21:40:57.380][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-11-14 21:40:57.382][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-11-14 21:40:57.383][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-11-14 21:40:57.384][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-11-14 21:40:57.386][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-14 21:40:57.387][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-11-14 21:40:57.388][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-11-14 21:40:57.389][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-11-14 21:40:57.391][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-11-14 21:40:57.392][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-11-14 21:40:57.393][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-11-14 21:40:57.395][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-11-14 21:40:57.396][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-14 21:40:57.397][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-11-14 21:40:57.399][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-11-14 21:40:57.400][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-11-14 21:40:57.401][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-11-14 21:40:57.403][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-11-14 21:40:57.404][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-11-14 21:40:57.405][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-11-14 21:40:57.407][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-11-14 21:40:57.408][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-11-14 21:40:57.409][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-11-14 21:40:57.411][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-11-14 21:40:57.412][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-11-14 21:40:57.413][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-11-14 21:40:57.414][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-11-14 21:40:57.416][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-11-14 21:40:57.417][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-11-14 21:40:57.418][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-11-14 21:40:57.420][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-11-14 21:40:57.421][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-11-14 21:40:57.422][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-11-14 21:40:57.424][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-11-14 21:40:57.425][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-11-14 21:40:57.426][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-11-14 21:40:57.428][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-11-14 21:40:57.429][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-11-14 21:40:57.430][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-11-14 21:40:57.431][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-11-14 21:40:57.433][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-11-14 21:40:57.434][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-11-14 21:40:57.435][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-11-14 21:40:57.437][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-11-14 21:40:57.438][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-11-14 21:40:57.439][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-11-14 21:40:57.441][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-11-14 21:40:57.442][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-11-14 21:40:57.443][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-11-14 21:40:57.445][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-11-14 21:40:57.446][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-11-14 21:40:57.447][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-11-14 21:40:57.448][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-11-14 21:40:57.450][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-11-14 21:40:57.451][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-11-14 21:40:57.452][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-11-14 21:40:57.454][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-11-14 21:40:57.455][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-11-14 21:40:57.456][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-11-14 21:40:57.458][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-11-14 21:40:57.459][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-14 21:40:57.460][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-14 21:40:57.461][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-11-14 21:40:57.463][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-11-14 21:40:57.464][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-11-14 21:40:57.465][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-11-14 21:40:57.467][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-11-14 21:40:57.468][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-11-14 21:40:57.469][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-11-14 21:40:57.471][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-11-14 21:40:57.472][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-11-14 21:40:57.473][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-11-14 21:40:57.475][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-11-14 21:40:57.476][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-11-14 21:40:57.477][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-11-14 21:40:57.478][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-11-14 21:40:57.480][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-11-14 21:40:57.481][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-11-14 21:40:57.483][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-11-14 21:40:57.484][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-11-14 21:40:57.484][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.486][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.488][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.489][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.490][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.491][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.502][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.506][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.512][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.522][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.DEBUG[2025-11-14 21:40:57.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.529][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.531][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.533][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[2025-11-14 21:40:57.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.540][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.542][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.557][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.564][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-11-14 21:40:57.569][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.573][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[2025-11-14 21:40:57.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.579][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[2025-11-14 21:40:57.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-11-14 21:40:57.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.583][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.585][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[2025-11-14 21:40:57.586][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-11-14 21:40:57.588][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-11-14 21:40:57.590][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.591][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.592][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.592][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-11-14 21:40:57.593][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.594][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.595][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.596][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-11-14 21:40:57.597][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-11-14 21:40:57.598][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-11-14 21:40:57.599][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.600][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-11-14 21:40:57.601][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-11-14 21:40:57.602][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-11-14 21:40:57.603][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-11-14 21:40:57.604][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-11-14 21:40:57.604][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-11-14 21:40:57.604][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-11-14 21:40:57.605][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-11-14 21:40:57.606][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.607][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.608][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-11-14 21:40:57.608][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-11-14 21:40:57.609][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-11-14 21:40:57.610][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-11-14 21:40:57.611][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-11-14 21:40:57.611][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-11-14 21:40:57.612][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-11-14 21:40:57.613][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-11-14 21:40:57.614][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-11-14 21:40:57.615][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-11-14 21:40:57.615][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-11-14 21:40:57.616][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-11-14 21:40:57.618][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-11-14 21:40:57.619][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-11-14 21:40:57.620][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-11-14 21:40:57.622][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-11-14 21:40:57.623][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-11-14 21:40:57.626][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-11-14 21:40:57.629][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-11-14 21:40:57.631][biodb::testThat]
biodb.INFO [2025-11-14 21:40:57.631][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-11-14 21:40:57.632][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-11-14 21:40:57.633][biodb::testThat]
sched.DEBUG[2025-11-14 21:40:57.636][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-11-14 21:40:57.638][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:57.643][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-11-14 21:40:57.644][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-11-14 21:40:57.647][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 [2025-11-14 21:40:57.650][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-11-14 21:40:57.652][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-11-14 21:40:57.653][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-11-14 21:40:57.657][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-11-14 21:40:57.659][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-11-14 21:40:57.661][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-11-14 21:40:57.669][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-11-14 21:40:57.671][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-11-14 21:40:57.672][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-11-14 21:40:57.673][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-11-14 21:40:57.675][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-11-14 21:40:57.676][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-11-14 21:40:57.688][ef$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.689][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.690][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.692][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.696][ef$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:57.697][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:57.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.699][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.700][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-11-14 21:40:57.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-11-14 21:40:57.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.704][ef$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:57.705][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:57.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.707][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.708][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-11-14 21:40:57.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-11-14 21:40:57.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.712][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-11-14 21:40:57.713][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-11-14 21:40:57.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.715][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.717][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-11-14 21:40:57.718][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-11-14 21:40:57.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.719][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.721][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:57.722][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:57.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.724][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.725][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:57.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-11-14 21:40:57.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.729][ef$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:57.730][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:57.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.732][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.733][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-11-14 21:40:57.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-11-14 21:40:57.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.737][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:57.738][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:57.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.740][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.741][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:57.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-11-14 21:40:57.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.745][ef$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:57.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:57.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.748][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.750][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-11-14 21:40:57.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-11-14 21:40:57.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.754][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:57.755][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:57.756][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.757][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.758][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-11-14 21:40:57.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-11-14 21:40:57.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.762][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:57.763][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:57.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.765][ef$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.766][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-11-14 21:40:57.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-11-14 21:40:57.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:57.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:57.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.774][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:57.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:57.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-11-14 21:40:57.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-11-14 21:40:57.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-11-14 21:40:57.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-11-14 21:40:57.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-11-14 21:40:57.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-11-14 21:40:57.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-11-14 21:40:57.808][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-11-14 21:40:57.811][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-11-14 21:40:57.812][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-11-14 21:40:57.813][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-11-14 21:40:57.814][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-11-14 21:40:57.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-11-14 21:40:57.816][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-11-14 21:40:57.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-11-14 21:40:57.823][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-11-14 21:40:57.824][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".
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 357 ]
══ Skipped tests (1) ═══════════════════════════════════════════════════════════
• empty test (1):
[ FAIL 0 | WARN 0 | SKIP 1 | PASS 357 ]
>
> proc.time()
user system elapsed
31.546 1.147 39.873
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 1.055 | 0.053 | 1.755 | |
| ChebiEntry | 0.274 | 0.005 | 0.495 | |