Pierrick Roger
| Snapshot Date: 2025-06-08 13:25 -0400 (Sun, 08 Jun 2025) |
| git_url: https://git.bioconductor.org/packages/biodbChebi |
| git_branch: devel |
| git_last_commit: 1a7ef22 |
| git_last_commit_date: 2025-04-15 12:39:10 -0400 (Tue, 15 Apr 2025) |
| Back to Multiple platform build/check report for BioC 3.22: simplified long |
|
This page was generated on 2025-06-09 12:11 -0400 (Mon, 09 Jun 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4794 |
| palomino8 | Windows Server 2022 Datacenter | x64 | 4.5.0 (2025-04-11 ucrt) -- "How About a Twenty-Six" | 4535 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" | 4573 |
| kjohnson3 | macOS 13.7.1 Ventura | arm64 | 4.5.0 Patched (2025-04-21 r88169) -- "How About a Twenty-Six" | 4512 |
| taishan | Linux (openEuler 24.03 LTS) | aarch64 | 4.5.0 (2025-04-11) -- "How About a Twenty-Six" | 4479 |
| 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 204/2309 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| biodbChebi 1.15.0 (landing page) Pierrick Roger
| nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | | ||||||||
| palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | ERROR | OK | |||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | ERROR | OK | |||||||||
| kjohnson3 | macOS 13.7.1 Ventura / arm64 | OK | OK | ERROR | OK | |||||||||
| taishan | Linux (openEuler 24.03 LTS) / aarch64 | OK | OK | OK | ||||||||||
|
To the developers/maintainers of the biodbChebi package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbChebi.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. - See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host. |
| Package: biodbChebi |
| Version: 1.15.0 |
| Command: /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.15.0.tar.gz |
| StartedAt: 2025-06-06 06:57:48 -0000 (Fri, 06 Jun 2025) |
| EndedAt: 2025-06-06 07:25:59 -0000 (Fri, 06 Jun 2025) |
| EllapsedTime: 1690.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: biodbChebi.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/R/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings biodbChebi_1.15.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.0 (2025-04-11)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.15.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
ChebiConn 0.917 3.877 13.844
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE
Status: OK
biodbChebi.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R/bin/R CMD INSTALL biodbChebi ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.5.0/site-library’ * installing *source* package ‘biodbChebi’ ... ** this is package ‘biodbChebi’ version ‘1.15.0’ ** 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 4.5.0 (2025-04-11) -- "How About a Twenty-Six"
Copyright (C) 2025 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-06-06 07:25:31.208][biodb::testContext]
biodb.INFO [2025-06-06 07:25:31.211][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-06 07:25:31.212][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-06-06 07:25:31.230][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-06 07:25:31.232][biodb::testContext]
biodb.INFO [2025-06-06 07:25:31.241][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.0.
biodb.DEBUG[2025-06-06 07:25:31.244][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-06-06 07:25:31.256][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:31.258][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-06-06 07:25:31.259][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-06-06 07:25:31.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.264][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-06-06 07:25:31.292][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-06-06 07:25:31.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.297][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-06-06 07:25:31.299][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-06-06 07:25:31.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.304][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-06-06 07:25:31.306][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-06-06 07:25:31.307][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-06-06 07:25:31.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.312][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-06-06 07:25:31.314][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-06-06 07:25:31.316][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-06-06 07:25:31.317][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.321][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-06-06 07:25:31.323][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-06-06 07:25:31.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.326][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[2025-06-06 07:25:31.328][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-06-06 07:25:31.329][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-06-06 07:25:31.330][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-06-06 07:25:31.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.335][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-06-06 07:25:31.336][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-06-06 07:25:31.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.339][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.340][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[2025-06-06 07:25:31.341][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-06-06 07:25:31.342][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-06-06 07:25:31.344][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-06-06 07:25:31.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.349][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-06-06 07:25:31.350][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-06-06 07:25:31.352][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-06-06 07:25:31.353][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-06-06 07:25:31.354][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-06-06 07:25:31.356][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-06-06 07:25:31.357][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.361][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-06-06 07:25:31.362][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-06-06 07:25:31.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.367][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-06-06 07:25:31.369][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-06-06 07:25:31.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.374][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-06-06 07:25:31.376][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-06-06 07:25:31.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.381][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-06-06 07:25:31.382][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-06-06 07:25:31.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.387][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-06-06 07:25:31.389][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-06-06 07:25:31.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.393][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-06-06 07:25:31.395][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-06-06 07:25:31.401][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-06-06 07:25:31.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.406][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-06-06 07:25:31.407][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-06-06 07:25:31.408][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-06-06 07:25:31.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.417][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-06-06 07:25:31.465][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.488][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-06-06 07:25:31.490][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.491][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:31.492][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.494][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.495][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.506][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.507][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-06 07:25:31.508][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:31.510][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.511][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-06-06 07:25:31.512][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:31.514][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.515][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.516][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:31.516][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:31.516][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:31.516][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-06 07:25:31.516][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-06 07:25:31.518][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:31.519][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:31.520][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:31.521][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:31.523][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:31.524][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:31.526][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.527][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.528][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:31.530][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:31.531][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.533][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.534][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-06-06 07:25:31.537][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.538][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-06-06 07:25:31.540][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.541][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:31.543][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.544][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.545][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.547][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.548][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-06 07:25:31.549][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:31.551][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.552][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-06-06 07:25:31.553][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:31.555][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.556][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.557][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:31.557][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:31.557][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:31.557][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-06 07:25:31.557][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-06 07:25:31.559][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:31.560][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:31.561][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:31.563][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:31.564][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:31.565][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:31.566][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.568][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.569][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:31.570][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:31.571][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.573][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.574][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-06-06 07:25:31.577][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.578][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-06-06 07:25:31.579][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.581][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:31.582][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.583][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.585][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.586][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.587][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-06 07:25:31.589][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:31.590][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.591][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-06-06 07:25:31.593][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:31.594][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.595][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.597][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.598][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:31.599][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:31.601][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:31.602][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:31.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:31.604][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:31.606][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.607][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.608][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:31.609][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:31.611][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.612][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.614][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-06-06 07:25:31.616][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.617][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-06-06 07:25:31.619][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.620][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:31.621][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.623][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.624][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.625][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.627][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-06 07:25:31.628][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:31.629][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.631][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-06-06 07:25:31.632][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:31.634][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.635][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:31.636][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.637][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:31.639][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:31.640][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:31.641][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:31.643][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:31.644][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:31.645][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:31.646][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.648][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:31.649][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:31.650][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:31.651][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:31.656][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:31.658][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.659][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.DEBUG[2025-06-06 07:25:31.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.666][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.672][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.678][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.702][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.712][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[2025-06-06 07:25:31.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.716][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.733][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.734][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.736][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[2025-06-06 07:25:31.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.748][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[2025-06-06 07:25:31.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.759][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.761][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[2025-06-06 07:25:31.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.768][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-06-06 07:25:31.775][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-06-06 07:25:31.777][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-06-06 07:25:31.779][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-06-06 07:25:31.781][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-06 07:25:31.783][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-06 07:25:31.785][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-06-06 07:25:31.787][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-06-06 07:25:31.789][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-06-06 07:25:31.791][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-06 07:25:31.793][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-06 07:25:31.795][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-06-06 07:25:31.797][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-06-06 07:25:31.799][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-06-06 07:25:31.801][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-06-06 07:25:31.803][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-06 07:25:31.805][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-06-06 07:25:31.807][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-06-06 07:25:31.809][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-06 07:25:31.811][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-06-06 07:25:31.813][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-06-06 07:25:31.815][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-06-06 07:25:31.817][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-06-06 07:25:31.819][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-06-06 07:25:31.821][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-06-06 07:25:31.823][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-06-06 07:25:31.825][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-06-06 07:25:31.827][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-06-06 07:25:31.829][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-06-06 07:25:31.831][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-06-06 07:25:31.833][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-06-06 07:25:31.835][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-06-06 07:25:31.837][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-06-06 07:25:31.839][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-06-06 07:25:31.841][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-06-06 07:25:31.843][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-06-06 07:25:31.845][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-06-06 07:25:31.847][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-06-06 07:25:31.849][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-06-06 07:25:31.852][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-06-06 07:25:31.854][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-06-06 07:25:31.856][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-06-06 07:25:31.858][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-06-06 07:25:31.860][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-06-06 07:25:31.862][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-06-06 07:25:31.864][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-06-06 07:25:31.866][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-06-06 07:25:31.868][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-06-06 07:25:31.870][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-06-06 07:25:31.872][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-06-06 07:25:31.874][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-06-06 07:25:31.876][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-06-06 07:25:31.878][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-06-06 07:25:31.880][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-06-06 07:25:31.882][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-06-06 07:25:31.883][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-06-06 07:25:31.885][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-06-06 07:25:31.888][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-06-06 07:25:31.890][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-06-06 07:25:31.891][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-06-06 07:25:31.893][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-06-06 07:25:31.895][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-06-06 07:25:31.897][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-06-06 07:25:31.899][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-06-06 07:25:31.901][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-06-06 07:25:31.903][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-06-06 07:25:31.906][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-06 07:25:31.908][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-06 07:25:31.910][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-06-06 07:25:31.912][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-06-06 07:25:31.915][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-06-06 07:25:31.917][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-06-06 07:25:31.919][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-06-06 07:25:31.921][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-06-06 07:25:31.923][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-06-06 07:25:31.925][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-06-06 07:25:31.927][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-06-06 07:25:31.930][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-06-06 07:25:31.932][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-06-06 07:25:31.934][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-06-06 07:25:31.935][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-06-06 07:25:31.937][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-06-06 07:25:31.939][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-06-06 07:25:31.948][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-06-06 07:25:31.950][initialize] This is biodb version 1.17.0.
biodb.DEBUG[2025-06-06 07:25:31.954][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:31.955][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.958][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:31.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:31.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:31.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:31.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:31.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:31.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:31.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.991][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[2025-06-06 07:25:31.992][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:31.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:31.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:31.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:31.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:31.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:31.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.099][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.110][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[2025-06-06 07:25:32.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:32.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.114][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:32.121][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-06-06 07:25:32.136][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-06-06 07:25:32.139][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:32.140][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-06-06 07:25:32.142][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:32.143][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:32.145][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:32.146][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:32.148][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:32.149][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-06-06 07:25:32.150][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-06-06 07:25:32.152][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:32.153][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:32.155][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-06-06 07:25:32.156][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-06-06 07:25:32.157][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-06-06 07:25:32.159][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:32.160][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:32.160][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:32.160][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:32.162][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-06-06 07:25:32.163][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:32.164][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:32.165][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:32.167][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:32.168][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:32.169][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:32.171][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-06-06 07:25:32.171][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-06-06 07:25:32.172][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:32.173][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:32.175][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:32.176][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-06-06 07:25:32.176][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-06-06 07:25:32.185][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-06 07:25:32.187][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-06 07:25:32.190][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-06-06 07:25:32.192][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-06 07:25:32.194][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-06 07:25:32.196][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-06 07:25:32.231][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-06-06 07:25:32.233][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-06-06 07:25:32.238][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-06-06 07:25:32.244][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-06-06 07:25:32.250][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-06 07:25:32.251][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-06 07:25:32.253][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-06-06 07:25:32.255][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-06-06 07:25:32.267][biodb::testThat]
biodb.INFO [2025-06-06 07:25:32.269][biodb::testThat] Running test function test.entry.fields (" Entry fields have a correct value ").
biodb.INFO [2025-06-06 07:25:32.270][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:32.271][biodb::testThat]
biodb.TRACE[2025-06-06 07:25:32.277][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/R/R-4.5.0/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-06-06 07:25:32.318][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:32.323][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:32.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:32.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:32.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:32.361][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:32.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:32.363][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:32.365][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[2025-06-06 07:25:32.378][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.380][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.382][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.409][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:32.410][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:32.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.413][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.453][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:32.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:32.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.459][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:32.461][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:32.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.463][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:32.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:32.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.472][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:32.474][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:32.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.477][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:32.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:32.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.486][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:32.488][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:32.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.490][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.493][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:32.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:32.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.499][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:32.501][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:32.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.504][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.506][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:32.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:32.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.512][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:32.514][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:32.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.517][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.519][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:32.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:32.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.525][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:32.527][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:32.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.529][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:32.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:32.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.538][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:32.540][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:32.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.543][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.545][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:32.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:32.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.552][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:32.554][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:32.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.557][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.559][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:32.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:32.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.576][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:32.577][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:32.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.580][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.582][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:32.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:32.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.691][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.698][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:32.704][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-06-06 07:25:32.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:32.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:32.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.714][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:32.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:32.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:32.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:32.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:32.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:32.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:32.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:32.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:32.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:32.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.789][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-06 07:25:32.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-06 07:25:32.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.795][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-06 07:25:32.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-06 07:25:32.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.801][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-06-06 07:25:32.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-06-06 07:25:32.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.807][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-06-06 07:25:32.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-06-06 07:25:32.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.908][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.918][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.944][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.955][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.957][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.960][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:32.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:32.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.985][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:32.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:32.996][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.998][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:32.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.001][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.002][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:33.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:33.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.028][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:33.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:33.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.034][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:33.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:33.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.039][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:33.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:33.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.045][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:33.047][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:33.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.049][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:33.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:33.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.067][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:33.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:33.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.072][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:33.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:33.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.079][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:33.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:33.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.084][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:33.086][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:33.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.088][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.090][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:33.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:33.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.106][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.125][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.126][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.129][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.147][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.165][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.166][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.169][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.170][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.187][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:33.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:33.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.193][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:33.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:33.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.199][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:33.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:33.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.204][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:33.206][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:33.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.208][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.210][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:33.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:33.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.234][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.239][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.245][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.250][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.251][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.254][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.255][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.271][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.276][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.282][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.287][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.288][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.291][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.292][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.309][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:33.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:33.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.315][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:33.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:33.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.320][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:33.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:33.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:33.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:33.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.329][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.331][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:33.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:33.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.347][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.352][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.363][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.364][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.365][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.367][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.368][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.383][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:33.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:33.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.389][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:33.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:33.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:33.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:33.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.399][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:33.400][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:33.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.403][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.404][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:33.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:33.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.419][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:33.421][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:33.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.423][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.437][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:33.438][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:33.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.441][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.447][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:33.449][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:33.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.451][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.457][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:33.459][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:33.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.462][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.468][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.469][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.472][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.478][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.480][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.482][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.488][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.490][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.492][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.499][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.500][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.503][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.509][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.511][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.513][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.519][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:33.521][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:33.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.523][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.529][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:33.531][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:33.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.533][ef$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:33.544][biodb::testThat]
biodb.INFO [2025-06-06 07:25:33.545][biodb::testThat] Running test function test.rt.unit (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-06-06 07:25:33.546][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:33.548][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:33.567][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-06-06 07:25:33.575][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:33.735][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-06-06 07:25:33.740][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:33.743][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-06-06 07:25:33.745][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:33.780][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:33.782][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:33.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:33.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:33.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:33.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:33.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:33.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:33.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:33.810][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:33.811][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:33.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.814][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.816][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:33.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:33.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.849][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:33.851][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:33.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.854][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.855][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:33.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:33.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.861][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:33.862][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:33.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.865][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.867][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:33.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:33.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.872][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:33.874][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:33.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.876][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:33.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:33.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.883][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.885][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.887][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.889][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:33.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.894][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.896][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.899][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.901][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:33.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.906][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:33.907][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.910][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.912][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:33.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:33.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.918][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.919][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.922][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:33.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.929][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:33.931][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:33.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.933][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.935][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:33.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:33.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.941][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:33.942][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.945][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.947][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:33.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:33.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.952][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:33.954][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:33.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.956][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.958][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:33.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:33.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:33.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:33.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:33.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:33.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:33.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:33.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:33.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:33.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:33.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:33.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:33.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:33.999][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:34.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:34.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.004][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:34.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:34.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:34.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:34.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:34.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:34.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:34.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:34.028][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-06-06 07:25:34.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-06-06 07:25:34.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-06-06 07:25:34.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-06-06 07:25:34.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-06-06 07:25:34.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-06-06 07:25:34.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-06-06 07:25:34.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:34.057][biodb::testThat]
biodb.INFO [2025-06-06 07:25:34.058][biodb::testThat] Running test function test.searchForEntries (" We can search for an entry by searchable field ").
biodb.INFO [2025-06-06 07:25:34.060][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:34.061][biodb::testThat]
biodb.TRACE[2025-06-06 07:25:34.065][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:34.067][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:34.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.070][ef$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:34.071][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-06-06 07:25:34.109][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:34.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:34.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.116][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:34.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:34.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.121][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:34.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:34.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:34.130][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-06-06 07:25:34.136][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-06-06 07:25:34.167][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:34.200][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-06-06 07:25:34.202][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:34.205][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-06-06 07:25:34.243][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:34.248][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:34.250][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-06-06 07:25:34.252][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:34.256][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-06-06 07:25:34.260][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-06-06 07:25:34.279][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:34.281][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:34.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.283][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.284][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.286][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.288][ef$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:34.295][biodb::testThat]
biodb.INFO [2025-06-06 07:25:34.296][biodb::testThat] Running test function test.searchByName (" We can search for an entry by name. ").
biodb.INFO [2025-06-06 07:25:34.298][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:34.299][biodb::testThat]
biodb.TRACE[2025-06-06 07:25:34.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:34.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:34.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.341][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:34.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:34.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:34.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:34.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:34.520][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:34.525][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:34.527][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-06-06 07:25:34.529][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:34.531][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-06-06 07:25:34.557][biodb::testThat]
biodb.INFO [2025-06-06 07:25:34.559][biodb::testThat] Running test function testEntryLoading (" We can load an entry from the database. ").
biodb.INFO [2025-06-06 07:25:34.560][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:34.562][biodb::testThat]
biodb.TRACE[2025-06-06 07:25:34.595][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:34.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:34.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:34.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:34.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.608][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:34.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:34.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.615][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:34.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:34.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.622][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.637][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-06 07:25:34.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-06 07:25:34.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.643][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-06 07:25:34.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-06 07:25:34.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.649][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-06-06 07:25:34.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-06-06 07:25:34.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.656][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-06-06 07:25:34.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-06-06 07:25:34.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.698][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:34.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:34.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:34.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:34.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.711][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:34.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:34.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.718][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:34.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:34.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:34.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.738][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-06 07:25:34.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-06 07:25:34.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.744][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-06-06 07:25:34.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-06-06 07:25:34.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.751][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-06-06 07:25:34.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-06-06 07:25:34.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:34.758][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-06-06 07:25:34.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-06-06 07:25:34.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:34.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:34.772][biodb::testThat]
biodb.INFO [2025-06-06 07:25:34.774][biodb::testThat] Running test function test.entry.page.url (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-06-06 07:25:34.776][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:34.777][biodb::testThat]
biodb.INFO [2025-06-06 07:25:34.790][biodb::testThat]
biodb.INFO [2025-06-06 07:25:34.792][biodb::testThat] Running test function test.entry.image.url (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-06-06 07:25:34.793][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:34.795][biodb::testThat]
biodb.INFO [2025-06-06 07:25:34.807][biodb::testThat]
biodb.INFO [2025-06-06 07:25:34.809][biodb::testThat] Running test function test.entry.page.url.download (" The entry page URL can be downloaded. ").
biodb.INFO [2025-06-06 07:25:34.810][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:34.812][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:34.818][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-06-06 07:25:36.479][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-06-06 07:25:38.052][biodb::testThat]
biodb.INFO [2025-06-06 07:25:38.054][biodb::testThat] Running test function test.entry.image.url.download (" The entry image URL can be downloaded. ").
biodb.INFO [2025-06-06 07:25:38.055][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:38.056][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:39.087][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-06-06 07:25:39.805][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:39.807][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:39.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:39.810][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:39.811][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:39.813][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:39.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:39.815][ef$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:39.818][biodb::testThat]
biodb.INFO [2025-06-06 07:25:39.819][biodb::testThat] Running test function test.searchCompound (" We can search for a compound ").
biodb.INFO [2025-06-06 07:25:39.821][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:39.822][biodb::testThat]
biodb.TRACE[2025-06-06 07:25:39.838][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:39.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:39.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:39.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:39.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:39.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:39.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:39.869][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:39.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:39.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:39.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:39.990][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:39.995][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:39.997][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-06-06 07:25:39.998][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:40.000][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-06-06 07:25:40.104][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:40.108][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:40.110][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-06-06 07:25:40.112][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:40.114][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-06-06 07:25:40.133][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-06 07:25:40.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-06 07:25:40.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:40.189][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:40.195][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:40.197][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-06-06 07:25:40.198][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:40.201][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-06-06 07:25:40.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:40.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:40.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:40.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:40.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:40.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:40.218][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.DEBUG[2025-06-06 07:25:40.219][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-06-06 07:25:40.291][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:40.293][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-06-06 07:25:40.295][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:40.297][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-06-06 07:25:40.299][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:40.301][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:40.311][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:40.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:40.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:40.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:40.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:40.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:40.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:40.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:40.329][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.331][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.333][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.335][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.341][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:40.342][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:40.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.345][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.347][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:40.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:40.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.352][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:40.354][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:40.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.356][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.359][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:40.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:40.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.365][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:40.366][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:40.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.369][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.371][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:40.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:40.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.376][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:40.378][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:40.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.380][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.382][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:40.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:40.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.388][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:40.389][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:40.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.392][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.394][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:40.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.398][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.400][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:40.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.405][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:40.407][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:40.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.409][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:40.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:40.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.417][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:40.418][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:40.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.421][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.423][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:40.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:40.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.429][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:40.430][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:40.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.433][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.435][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:40.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:40.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.440][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:40.442][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:40.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.444][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.446][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:40.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:40.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:40.550][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-06-06 07:25:40.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:40.607][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:40.616][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:40.619][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-06-06 07:25:40.622][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:40.628][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-06-06 07:25:40.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:40.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:40.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:40.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:40.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:40.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:40.728][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.TRACE[2025-06-06 07:25:40.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.740][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:40.753][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:40.755][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:40.756][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:40.762][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:40.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:40.765][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:40.766][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[2025-06-06 07:25:40.768][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-06-06 07:25:40.769][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:40.771][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-06-06 07:25:40.773][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:40.776][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-06-06 07:25:40.778][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:40.779][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:40.781][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:40.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:40.784][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:40.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:40.792][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:40.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:40.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:40.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:40.800][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.802][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.804][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.806][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.812][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:40.813][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:40.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.816][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.817][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:40.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.823][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:40.824][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:40.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.827][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.829][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:40.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:40.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.835][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:40.836][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:40.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.839][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.841][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:40.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:40.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.846][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:40.848][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:40.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.850][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:40.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:40.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.857][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:40.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:40.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.861][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.863][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:40.872][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.875][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.877][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:40.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.883][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:40.884][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:40.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.887][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:40.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:40.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.894][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:40.895][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:40.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.898][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:40.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:40.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.905][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:40.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:40.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.909][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.911][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:40.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:40.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.917][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:40.918][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:40.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.921][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.922][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:40.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.944][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.961][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:40.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:40.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:40.982][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-06-06 07:25:40.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.989][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:40.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:40.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:40.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:41.033][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:41.037][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:41.039][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-06-06 07:25:41.040][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:41.042][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-06-06 07:25:41.046][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.048][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:41.061][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.066][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.071][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:41.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:41.091][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-06-06 07:25:41.092][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:41.094][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-06-06 07:25:41.096][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:41.098][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-06-06 07:25:41.100][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:41.102][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:41.103][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:41.105][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.106][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.108][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.116][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.117][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:41.121][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.123][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.125][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.132][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:41.134][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:41.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.136][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.138][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:41.139][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:41.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.142][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.144][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:41.145][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:41.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.148][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.149][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.159][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.162][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.163][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.165][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.167][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.169][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:41.170][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.173][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.174][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.176][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.178][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.180][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:41.181][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:41.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.184][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:41.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:41.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.191][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:41.193][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:41.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.195][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.197][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:41.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:41.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:41.204][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:41.205][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.207][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.214][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.252][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:41.263][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-06-06 07:25:41.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:41.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:41.348][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-06-06 07:25:41.350][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:41.352][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-06-06 07:25:41.353][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:41.356][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-06-06 07:25:41.357][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:41.359][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:41.360][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:41.363][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.374][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:41.379][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.380][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.383][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.390][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:41.391][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:41.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.394][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.395][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:41.397][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:41.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.399][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:41.403][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:41.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.405][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.407][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.408][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.411][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.412][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.414][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.416][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.418][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:41.419][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.422][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.423][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.425][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.427][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.429][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:41.430][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:41.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.433][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.435][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:41.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:41.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.441][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:41.442][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:41.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.445][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.446][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:41.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:41.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.452][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:41.453][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:41.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.456][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.515][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:41.521][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-06-06 07:25:41.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.533][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:41.550][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.551][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.552][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.562][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[2025-06-06 07:25:41.564][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-06-06 07:25:41.565][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:41.567][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-06-06 07:25:41.569][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:41.572][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-06-06 07:25:41.573][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:41.575][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:41.576][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:41.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:41.595][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.596][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.599][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.606][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:41.607][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:41.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.610][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.611][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:41.620][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:41.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.624][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.626][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:41.627][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:41.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.630][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.631][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.633][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.635][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.637][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.638][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.641][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.643][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:41.644][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.647][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.648][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.650][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.652][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.654][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:41.655][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:41.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.658][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.660][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:41.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:41.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.666][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:41.668][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:41.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.670][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.672][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:41.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:41.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.677][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:41.679][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:41.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.681][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.683][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.710][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:41.737][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-06-06 07:25:41.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.749][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:41.773][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.782][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.784][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.785][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[2025-06-06 07:25:41.787][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-06-06 07:25:41.788][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:41.790][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-06-06 07:25:41.792][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:41.795][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-06-06 07:25:41.796][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:41.798][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:41.799][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:41.802][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:41.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:41.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:41.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:41.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:41.813][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:41.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:41.818][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.819][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.821][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.822][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.829][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:41.831][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:41.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.833][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.835][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:41.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:41.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.840][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:41.842][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:41.843][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.844][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.846][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:41.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:41.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.852][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:41.853][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:41.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.856][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:41.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:41.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.863][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.864][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.867][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:41.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.874][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.876][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.878][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.880][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:41.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.885][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:41.887][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.889][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.891][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:41.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:41.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.897][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.906][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.909][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:41.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.917][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:41.918][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:41.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.921][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:41.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:41.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.928][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:41.930][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:41.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.932][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.934][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:41.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:41.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.940][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:41.941][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:41.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.944][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:41.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:41.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:41.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:41.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:41.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:42.005][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-06-06 07:25:42.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.012][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:42.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:42.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:42.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:42.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:42.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:42.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:42.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:42.036][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-06-06 07:25:42.038][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:42.048][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-06-06 07:25:42.050][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:42.052][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-06-06 07:25:42.054][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:42.056][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:42.057][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:42.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:42.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:42.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:42.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:42.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:42.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:42.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:42.075][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.076][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.079][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.086][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:42.087][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:42.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.090][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.092][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:42.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:42.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.097][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:42.098][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:42.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.101][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.103][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:42.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:42.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.108][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:42.110][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:42.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.112][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.114][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:42.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:42.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.119][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.123][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.131][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.132][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.135][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.137][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.142][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:42.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.146][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.148][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:42.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.153][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.155][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.157][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.165][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:42.166][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:42.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.169][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.171][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:42.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:42.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.176][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:42.178][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:42.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.180][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.182][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:42.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:42.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.196][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:42.198][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:42.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.200][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.202][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:42.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:42.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.223][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:42.260][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-06-06 07:25:42.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.272][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:42.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:42.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:42.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:42.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:42.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:42.289][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:42.290][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[2025-06-06 07:25:42.292][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-06-06 07:25:42.293][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:42.295][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-06-06 07:25:42.297][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:42.299][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-06-06 07:25:42.301][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:42.303][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:42.304][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:42.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:42.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:42.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:42.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:42.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:42.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:42.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:42.322][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.324][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.401][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.417][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:42.419][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:42.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.423][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.425][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:42.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:42.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.433][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:42.435][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:42.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.438][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.441][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:42.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:42.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.448][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:42.450][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:42.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.453][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.455][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:42.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:42.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.463][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.465][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.468][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.478][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.480][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.483][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.485][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:42.487][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.490][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.492][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:42.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.500][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.502][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.505][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.515][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:42.517][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:42.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.520][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.522][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:42.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:42.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.530][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:42.532][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:42.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.535][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.538][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:42.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:42.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.545][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:42.546][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:42.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.550][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.552][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:42.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:42.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:42.625][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-06-06 07:25:42.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:42.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:42.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:42.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:42.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:42.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:42.659][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:42.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:42.662][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-06-06 07:25:42.664][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:42.666][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-06-06 07:25:42.668][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:42.670][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-06-06 07:25:42.672][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:42.674][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:42.675][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:42.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:42.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:42.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:42.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:42.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:42.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:42.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:42.694][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.695][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.698][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.705][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:42.706][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:42.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.709][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.711][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:42.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:42.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.716][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:42.717][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:42.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.720][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.722][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:42.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:42.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.727][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:42.729][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:42.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.739][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:42.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:42.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.746][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.748][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.750][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.757][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.758][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.761][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.762][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:42.764][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.765][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.766][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.768][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.774][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.775][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.777][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:42.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.785][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:42.786][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:42.787][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.789][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.791][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:42.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:42.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.796][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:42.797][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:42.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.800][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.802][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.807][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:42.808][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:42.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.811][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.813][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:42.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:42.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:42.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.850][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:42.880][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-06-06 07:25:42.881][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:42.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:42.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:42.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:42.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:42.905][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:42.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:42.907][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:42.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:42.910][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-06-06 07:25:42.911][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:42.914][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-06-06 07:25:42.915][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:42.918][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-06-06 07:25:42.919][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:42.921][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:42.923][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:42.925][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:42.926][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:42.927][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:42.933][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:42.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:42.936][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:42.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:42.940][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.942][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.944][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:42.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:42.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.951][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:42.953][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:42.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.955][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.957][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:42.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:42.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.963][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:42.964][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:42.965][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.967][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.968][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:42.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:42.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.974][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:42.975][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:42.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.978][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:42.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:42.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.985][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.986][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.989][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:42.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:42.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:42.996][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.997][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:42.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.000][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.001][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.003][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.005][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.007][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.020][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.022][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.024][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.031][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.033][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.035][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.037][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.043][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.044][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.047][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.048][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.054][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:43.055][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:43.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.058][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.059][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:43.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:43.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.065][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.086][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.103][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:43.119][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-06-06 07:25:43.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.131][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:43.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:43.137][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:43.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:43.145][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:43.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:43.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:43.157][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[2025-06-06 07:25:43.158][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-06-06 07:25:43.160][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:43.162][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-06-06 07:25:43.163][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:43.166][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-06-06 07:25:43.167][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:43.169][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:43.170][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:43.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:43.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:43.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:43.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:43.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:43.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:43.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:43.188][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.190][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.193][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.200][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:43.201][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:43.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.204][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.205][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:43.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:43.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.211][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:43.212][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:43.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.215][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.216][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:43.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:43.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.222][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:43.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:43.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.226][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:43.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:43.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.233][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.234][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.237][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.244][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:43.245][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:43.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.248][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.249][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.251][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.253][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.255][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.260][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.262][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.264][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.266][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.272][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.273][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.276][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.278][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.283][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.285][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.287][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.297][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.303][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:43.304][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:43.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.306][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.308][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:43.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:43.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.323][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.344][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:43.365][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-06-06 07:25:43.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:43.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:43.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:43.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:43.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:43.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:43.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:43.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:43.396][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-06-06 07:25:43.397][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:43.399][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-06-06 07:25:43.401][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:43.403][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-06-06 07:25:43.405][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:43.406][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:43.408][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:43.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:43.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:43.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:43.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:43.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:43.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:43.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:43.432][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.434][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.436][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.443][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:43.444][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:43.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.447][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:43.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:43.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.454][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:43.456][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:43.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.458][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.460][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:43.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.465][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:43.467][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:43.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.469][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.471][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:43.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:43.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.476][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.478][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.480][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.487][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:43.489][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:43.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.491][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.493][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.494][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.497][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.498][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.504][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.506][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.508][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.515][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.517][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.519][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.521][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.526][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.528][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.530][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.532][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.537][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:43.539][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:43.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.541][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.543][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:43.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:43.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:43.609][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-06-06 07:25:43.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.621][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:43.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:43.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:43.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:43.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:43.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:43.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:43.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:43.640][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-06-06 07:25:43.642][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:43.644][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-06-06 07:25:43.645][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:43.648][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-06-06 07:25:43.649][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:43.651][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:43.652][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:43.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:43.656][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:43.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:43.663][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:43.664][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:43.666][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:43.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:43.670][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.671][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.674][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.681][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:43.682][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:43.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.685][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.686][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:43.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:43.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.692][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:43.693][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:43.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.696][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:43.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:43.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.711][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:43.712][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:43.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.715][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.716][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.718][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.720][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.722][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:43.723][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:43.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.726][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.727][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.729][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.731][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.733][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.738][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.740][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.742][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.749][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.751][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.753][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.755][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.761][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.762][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.764][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.766][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.772][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:43.773][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:43.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.776][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.788][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.793][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:43.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:43.830][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-06-06 07:25:43.832][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:43.856][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:43.857][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:43.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:43.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:43.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:43.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:43.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:43.869][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-06-06 07:25:43.871][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:43.873][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-06-06 07:25:43.875][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:43.877][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-06-06 07:25:43.879][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:43.880][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:43.882][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:43.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:43.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:43.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:43.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:43.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:43.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:43.897][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:43.900][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.901][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.904][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:43.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:43.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.911][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:43.912][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:43.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.915][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.916][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:43.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:43.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.922][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:43.923][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:43.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.926][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.927][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:43.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:43.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:43.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:43.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.937][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.938][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.940][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:43.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.942][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.944][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:43.945][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:43.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.948][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.950][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.951][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.954][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.955][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:43.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:43.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.961][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.962][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.964][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:43.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.971][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.973][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.983][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.985][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:43.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:43.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.990][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.992][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:43.994][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:43.996][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:43.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:43.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.001][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:44.002][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:44.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.005][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.007][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.034][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:44.060][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-06-06 07:25:44.062][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.072][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:44.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:44.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:44.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:44.087][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:44.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:44.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:44.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:44.092][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-06-06 07:25:44.093][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:44.095][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-06-06 07:25:44.097][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:44.102][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-06-06 07:25:44.104][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:44.105][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:44.107][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:44.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:44.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:44.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:44.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:44.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:44.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:44.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:44.131][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.133][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.135][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.142][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:44.143][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:44.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.146][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.148][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:44.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:44.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.153][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:44.154][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:44.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.157][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.159][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:44.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:44.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.164][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:44.166][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:44.167][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.168][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.170][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:44.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:44.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.175][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.177][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.179][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.181][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.186][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:44.188][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:44.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.190][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.192][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:44.193][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.196][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.197][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:44.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.203][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.204][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.207][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.209][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.214][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:44.215][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:44.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.218][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.220][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:44.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:44.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.225][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:44.227][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:44.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.229][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.231][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:44.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:44.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.236][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:44.238][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:44.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.240][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.242][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:44.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:44.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.261][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.266][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.271][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.298][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:44.308][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-06-06 07:25:44.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:44.325][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:44.327][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:44.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:44.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:44.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:44.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:44.338][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[2025-06-06 07:25:44.339][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-06-06 07:25:44.340][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:44.343][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-06-06 07:25:44.344][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:44.347][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-06-06 07:25:44.348][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:44.350][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:44.352][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:44.354][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:44.355][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:44.356][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:44.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:44.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:44.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:44.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:44.370][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.371][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.374][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.381][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:44.382][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:44.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.385][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.386][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:44.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:44.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.404][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:44.406][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:44.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.409][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.410][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:44.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:44.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.416][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:44.417][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:44.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.419][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.421][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:44.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:44.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.426][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.428][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.430][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.437][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:44.439][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:44.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.441][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.443][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:44.444][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.447][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.448][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:44.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.454][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.455][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.458][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.459][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.465][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:44.466][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:44.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.469][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.470][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:44.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:44.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.476][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:44.477][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:44.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.480][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.481][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:44.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:44.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.487][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:44.488][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:44.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.491][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.492][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:44.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:44.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.503][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:44.559][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-06-06 07:25:44.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:44.576][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:44.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:44.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:44.585][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:44.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:44.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:44.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:44.591][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-06-06 07:25:44.592][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:44.594][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-06-06 07:25:44.596][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:44.598][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-06-06 07:25:44.600][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:44.601][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:44.603][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:44.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:44.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:44.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:44.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:44.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:44.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:44.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:44.620][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.622][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.624][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.631][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:44.633][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:44.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.635][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.637][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:44.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:44.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.642][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:44.644][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:44.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.646][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.648][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:44.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:44.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.654][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:44.655][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:44.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.658][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.659][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:44.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:44.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.665][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.666][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.669][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.670][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.698][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:44.700][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:44.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.702][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.704][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:44.706][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.708][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.710][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:44.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.716][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.717][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.720][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.728][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:44.729][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:44.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.732][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:44.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:44.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.739][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:44.741][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:44.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.744][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.745][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:44.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:44.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.751][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:44.753][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:44.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.755][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.757][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:44.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:44.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:44.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.814][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:44.819][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-06-06 07:25:44.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.826][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:44.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:44.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:44.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:44.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:44.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:44.856][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:44.857][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:44.859][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-06-06 07:25:44.860][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:44.862][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-06-06 07:25:44.864][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:44.866][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-06-06 07:25:44.868][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:44.870][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:44.871][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:44.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:44.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:44.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:44.882][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:44.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:44.885][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:44.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:44.889][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.891][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.893][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:44.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:44.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.900][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:44.902][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:44.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.904][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.906][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:44.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:44.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.912][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:44.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:44.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.916][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.917][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:44.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:44.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.923][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:44.924][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:44.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.927][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.929][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:44.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:44.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.934][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.936][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.938][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:44.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.946][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:44.947][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:44.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.950][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.951][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:44.953][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.955][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.957][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:44.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:44.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.963][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.964][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.967][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.969][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:44.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.982][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:44.984][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:44.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.987][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.989][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:44.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:44.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:44.994][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:44.996][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:44.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:44.998][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:45.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:45.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.005][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:45.007][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:45.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.009][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.011][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:45.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:45.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.040][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.074][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-06-06 07:25:45.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.086][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:45.106][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-06-06 07:25:45.107][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:45.109][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-06-06 07:25:45.111][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:45.113][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-06-06 07:25:45.115][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:45.123][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:45.126][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:45.128][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.129][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.130][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:45.143][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.145][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.147][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.154][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:45.156][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:45.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.158][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.160][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:45.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:45.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.166][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:45.167][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:45.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.170][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.172][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:45.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:45.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.177][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:45.179][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:45.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.181][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.183][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:45.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:45.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.189][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.190][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.193][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.194][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.200][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:45.201][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:45.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.204][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.206][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:45.207][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.210][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.211][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:45.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.217][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.218][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.221][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.228][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:45.230][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:45.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.232][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.234][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:45.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:45.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.240][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:45.241][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:45.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.244][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.245][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:45.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:45.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.251][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:45.252][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:45.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.255][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.257][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:45.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:45.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.318][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.323][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-06-06 07:25:45.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.340][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.341][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.342][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:45.353][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-06-06 07:25:45.355][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:45.357][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-06-06 07:25:45.358][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:45.361][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-06-06 07:25:45.362][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:45.364][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:45.365][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:45.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:45.383][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.384][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.387][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.388][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.401][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:45.403][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:45.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.406][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.407][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:45.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:45.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.413][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:45.414][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:45.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.417][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.418][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:45.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:45.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.424][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:45.425][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:45.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.428][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.429][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:45.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:45.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.435][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.436][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.439][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.440][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.446][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:45.447][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:45.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.450][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.451][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:45.453][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.455][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.457][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:45.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.463][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.464][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.467][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.468][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.474][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:45.475][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:45.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.478][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:45.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:45.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.485][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:45.487][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:45.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.489][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.491][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:45.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:45.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.497][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:45.498][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:45.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.501][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.502][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:45.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:45.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.560][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.570][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-06-06 07:25:45.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.577][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.589][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.590][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.600][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.601][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.DEBUG[2025-06-06 07:25:45.603][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-06-06 07:25:45.605][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:45.607][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-06-06 07:25:45.609][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:45.612][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-06-06 07:25:45.614][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:45.615][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:45.617][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:45.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:45.636][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.637][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.640][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.647][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:45.648][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:45.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.651][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.653][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:45.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:45.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.659][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:45.660][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:45.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.663][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.665][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:45.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:45.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.671][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:45.673][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:45.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.676][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.677][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:45.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:45.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.691][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.693][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.696][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:45.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.703][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:45.705][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:45.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.708][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.710][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:45.711][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.714][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.716][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:45.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.722][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.723][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.726][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.728][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:45.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.734][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:45.736][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:45.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.739][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.741][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:45.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:45.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.747][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:45.749][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:45.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.752][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.754][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:45.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:45.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.759][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:45.761][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:45.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.763][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.765][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:45.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:45.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:45.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.810][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:45.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:45.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.834][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-06-06 07:25:45.836][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.875][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:45.880][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:45.882][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-06-06 07:25:45.883][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:45.885][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-06-06 07:25:45.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:45.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.908][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.928][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.931][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.TRACE[2025-06-06 07:25:45.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.938][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:45.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:45.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:45.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:45.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:45.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:45.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:45.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:45.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:45.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:45.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:45.999][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.035][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.065][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.070][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.075][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.081][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.082][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.083][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.096][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.120][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.121][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.128][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.131][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.139][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.144][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.150][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.151][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.164][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.180][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.181][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.190][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.192][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.219][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.221][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.240][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.250][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.287][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.288][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.292][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.321][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.TRACE[2025-06-06 07:25:46.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.352][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.376][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.389][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.395][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.424][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.429][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.473][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.493][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.506][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.TRACE[2025-06-06 07:25:46.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.525][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.531][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.532][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.533][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.642][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:46.654][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:46.656][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-06-06 07:25:46.658][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:46.660][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-06-06 07:25:46.664][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:46.668][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:46.670][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-06-06 07:25:46.672][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:46.674][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-06-06 07:25:46.677][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:46.691][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-06-06 07:25:46.693][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:46.695][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-06-06 07:25:46.696][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:46.702][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-06-06 07:25:46.704][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:46.706][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:46.707][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:46.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.711][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.725][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.726][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.729][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.736][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:46.737][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:46.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.740][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.742][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:46.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:46.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.747][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:46.749][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:46.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.751][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.753][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:46.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:46.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.759][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:46.760][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:46.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.763][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:46.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:46.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.770][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:46.771][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:46.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.774][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:46.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:46.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:46.783][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:46.784][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.785][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.787][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:46.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:46.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.800][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:46.802][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.804][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.806][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:46.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:46.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.811][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.813][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.815][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.823][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:46.824][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:46.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.827][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.829][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:46.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:46.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.834][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:46.836][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:46.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.838][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.840][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:46.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:46.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.846][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:46.847][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:46.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.850][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.852][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:46.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:46.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:46.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:46.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:46.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:46.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:46.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:46.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.901][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.907][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:46.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:46.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.912][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-06-06 07:25:46.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.947][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:46.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.958][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:46.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:46.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:46.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:46.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:46.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:46.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:46.978][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:46.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:46.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:46.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:46.984][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-06-06 07:25:46.985][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:46.987][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-06-06 07:25:46.989][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:46.991][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-06-06 07:25:46.993][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:46.995][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:46.996][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:46.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.000][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.001][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.007][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.015][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.016][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.019][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.026][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:47.028][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:47.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.030][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.032][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:47.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:47.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.038][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:47.039][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:47.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.042][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.043][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:47.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:47.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.050][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:47.051][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:47.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.054][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.055][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:47.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:47.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.061][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:47.063][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:47.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.065][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.067][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:47.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:47.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.080][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:47.082][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:47.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.085][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.086][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:47.088][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:47.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.090][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.092][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:47.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:47.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.098][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.099][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.102][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.109][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:47.110][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:47.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.113][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.115][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:47.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:47.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.121][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:47.122][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:47.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.125][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.127][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:47.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:47.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.133][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:47.134][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:47.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.137][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.139][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:47.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:47.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.145][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:47.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:47.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.151][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:47.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:47.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:47.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:47.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:47.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:47.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.204][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-06-06 07:25:47.205][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.211][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.252][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:47.256][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:47.258][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-06-06 07:25:47.260][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:47.262][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-06-06 07:25:47.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.268][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.307][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.315][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.321][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.332][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.531][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.546][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.553][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.569][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.571][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.572][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.573][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[2025-06-06 07:25:47.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.581][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.587][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.614][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.616][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.618][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[2025-06-06 07:25:47.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.625][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.647][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.649][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.658][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.704][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.762][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.781][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.TRACE[2025-06-06 07:25:47.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.803][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.814][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.817][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.875][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.878][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.887][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.898][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.899][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.901][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.907][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.911][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.TRACE[2025-06-06 07:25:47.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.925][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.943][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.TRACE[2025-06-06 07:25:47.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.963][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:47.971][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:47.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:47.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:47.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:47.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:47.988][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:47.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:47.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:47.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:47.996][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:47.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.016][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.027][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.028][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.042][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.102][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.103][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.154][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:48.159][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:48.161][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-06-06 07:25:48.162][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:48.164][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-06-06 07:25:48.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.170][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.207][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.236][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.238][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.255][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.265][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.271][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.287][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.288][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.316][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.317][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.319][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.340][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.345][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.354][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.356][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.404][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.405][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.434][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.435][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.441][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.443][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.451][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.462][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.463][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.476][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.492][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.511][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.537][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.538][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.540][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.TRACE[2025-06-06 07:25:48.542][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.586][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.588][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.594][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.596][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.598][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.609][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.616][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.624][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.625][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.644][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.666][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.671][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.673][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.679][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.683][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[2025-06-06 07:25:48.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.712][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.TRACE[2025-06-06 07:25:48.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.719][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.760][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.761][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:48.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.806][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-06-06 07:25:48.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-06-06 07:25:48.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:48.821][biodb::testThat]
biodb.INFO [2025-06-06 07:25:48.823][biodb::testThat] Running test function test_annotateMzValues_input_vector (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-06-06 07:25:48.824][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:48.825][biodb::testThat]
biodb.TRACE[2025-06-06 07:25:48.829][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-06 07:25:48.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-06 07:25:48.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.834][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:48.875][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:48.879][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:48.881][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-06-06 07:25:48.882][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:48.884][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-06-06 07:25:48.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.899][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[2025-06-06 07:25:48.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.906][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.917][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:48.922][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:48.923][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-06-06 07:25:48.925][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:48.927][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-06-06 07:25:48.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.938][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.940][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:48.943][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.968][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:48.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:48.970][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:48.971][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.TRACE[2025-06-06 07:25:48.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:48.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:48.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:48.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:48.989][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-06-06 07:25:48.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:48.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:48.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:48.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.012][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.022][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.024][private$selectFields]
biodb.TRACE[2025-06-06 07:25:49.025][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:49.026][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:49.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.029][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.030][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.032][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.034][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.035][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.038][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.039][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.040][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.041][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.043][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.045][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.046][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:49.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.077][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-06-06 07:25:49.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.086][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.089][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.101][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.103][private$selectFields]
biodb.TRACE[2025-06-06 07:25:49.104][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:49.105][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:49.106][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.107][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.109][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.110][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.111][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.114][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.116][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.117][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.119][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.120][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.121][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.124][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.125][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:49.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.142][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-06-06 07:25:49.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.157][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.168][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.169][private$selectFields]
biodb.TRACE[2025-06-06 07:25:49.170][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:49.171][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:49.173][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.178][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.179][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.181][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.183][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.185][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.186][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.192][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.193][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:49.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.211][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-06-06 07:25:49.212][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-06-06 07:25:49.213][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-06-06 07:25:49.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.236][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:49.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.341][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:49.347][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:49.352][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:49.354][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-06-06 07:25:49.356][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:49.359][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-06-06 07:25:49.364][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:49.369][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:49.371][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-06-06 07:25:49.372][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:49.375][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-06-06 07:25:49.378][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.380][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.381][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.387][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.390][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:49.409][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.410][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:49.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:49.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:49.509][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-06-06 07:25:49.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.551][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.555][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.TRACE[2025-06-06 07:25:49.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.561][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.566][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.568][private$selectFields]
biodb.TRACE[2025-06-06 07:25:49.569][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:49.570][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:49.571][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.573][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.574][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.576][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.578][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.579][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.581][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.583][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.584][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.585][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.589][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.590][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:49.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.602][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.608][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-06-06 07:25:49.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.679][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.681][private$selectFields]
biodb.TRACE[2025-06-06 07:25:49.682][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:49.683][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:49.684][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.686][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.687][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.689][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.694][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.696][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.710][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.715][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.717][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:49.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.734][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-06-06 07:25:49.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.759][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.760][private$selectFields]
biodb.TRACE[2025-06-06 07:25:49.761][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:49.762][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:49.764][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.768][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.769][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.770][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.771][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.774][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.775][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.776][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:49.778][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.779][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.781][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.783][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:49.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:49.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.800][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-06-06 07:25:49.801][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-06-06 07:25:49.802][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-06-06 07:25:49.813][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-06-06 07:25:49.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-06-06 07:25:49.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:49.822][biodb::testThat]
biodb.INFO [2025-06-06 07:25:49.824][biodb::testThat] Running test function test_annotateMzValues_ppm_tol (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-06-06 07:25:49.825][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:49.826][biodb::testThat]
biodb.TRACE[2025-06-06 07:25:49.830][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-06 07:25:49.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-06 07:25:49.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:49.859][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.860][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.861][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.867][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:49.875][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:49.879][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:49.881][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-06-06 07:25:49.882][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:49.884][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-06-06 07:25:49.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.899][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[2025-06-06 07:25:49.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:49.924][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:49.928][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:49.930][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-06-06 07:25:49.931][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:49.933][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-06-06 07:25:49.936][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.937][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.938][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.947][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:49.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:49.965][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.966][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:49.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:49.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:49.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:49.977][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[2025-06-06 07:25:49.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.983][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:49.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:49.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:49.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:49.994][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-06-06 07:25:49.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:49.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:49.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.004][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.007][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.014][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.021][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.022][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.023][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.024][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.026][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.027][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.029][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.031][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.034][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.036][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.037][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.038][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.040][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.042][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.043][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.060][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-06-06 07:25:50.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.073][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.086][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.087][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.089][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.090][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.091][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.094][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.096][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.099][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.102][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.103][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.104][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.106][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.107][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.109][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.111][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.129][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-06-06 07:25:50.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.140][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.141][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.149][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.154][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.155][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.157][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.158][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.159][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.162][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.164][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.166][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.167][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.170][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.171][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.172][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.174][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.175][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.177][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.179][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.196][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-06-06 07:25:50.198][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-06-06 07:25:50.199][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-06-06 07:25:50.210][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:50.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.247][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[2025-06-06 07:25:50.251][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:50.255][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:50.257][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-06-06 07:25:50.258][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:50.260][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-06-06 07:25:50.264][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:50.268][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:50.270][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-06-06 07:25:50.271][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:50.273][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-06-06 07:25:50.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.289][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[2025-06-06 07:25:50.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:50.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.315][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.316][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.317][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:50.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.350][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.355][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:50.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:50.366][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-06-06 07:25:50.368][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.399][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.400][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.401][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.402][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.404][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.405][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.406][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.409][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.410][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.411][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.414][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.415][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.417][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.418][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.419][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.422][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.423][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.424][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.440][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-06-06 07:25:50.441][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.442][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.455][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.465][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.466][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.467][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.468][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.469][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.471][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.472][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.475][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.476][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.477][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.479][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.481][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.482][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.483][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.487][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.488][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.490][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.500][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.505][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-06-06 07:25:50.506][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.518][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[2025-06-06 07:25:50.520][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.530][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.531][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.533][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.534][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.535][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.537][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.538][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.541][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.542][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.543][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.546][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.549][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.550][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.554][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.555][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.562][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.572][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-06-06 07:25:50.574][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-06-06 07:25:50.575][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-06-06 07:25:50.586][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-06-06 07:25:50.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-06-06 07:25:50.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:50.595][biodb::testThat]
biodb.INFO [2025-06-06 07:25:50.596][biodb::testThat] Running test function test_annotateMzValues_input_dataframe_untouched (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-06-06 07:25:50.598][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:50.599][biodb::testThat]
biodb.TRACE[2025-06-06 07:25:50.602][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-06-06 07:25:50.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-06-06 07:25:50.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.608][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.618][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:50.634][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.635][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:50.650][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:50.654][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:50.656][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-06-06 07:25:50.658][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:50.659][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-06-06 07:25:50.662][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.663][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.665][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.672][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.673][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:50.693][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:50.697][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:50.699][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-06-06 07:25:50.700][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:50.702][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-06-06 07:25:50.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.713][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:50.735][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.743][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.747][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.TRACE[2025-06-06 07:25:50.748][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.754][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:50.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:50.765][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-06-06 07:25:50.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.793][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.794][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.795][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.798][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.799][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.802][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.803][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.804][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.807][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.808][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.809][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.815][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.816][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.817][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.828][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.834][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-06-06 07:25:50.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.854][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.856][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.866][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.868][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.869][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.870][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.871][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.873][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.874][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.876][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.878][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.879][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.882][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.883][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.884][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.887][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.889][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.890][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.892][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.908][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-06-06 07:25:50.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:50.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:50.911][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:50.917][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:50.919][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:50.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:50.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:50.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.933][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.934][private$selectFields]
biodb.TRACE[2025-06-06 07:25:50.935][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:50.936][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:50.937][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.939][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.940][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.942][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.944][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.947][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.949][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.950][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:50.951][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.955][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.956][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:50.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.968][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:50.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:50.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:50.973][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-06-06 07:25:50.975][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-06-06 07:25:50.976][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-06-06 07:25:51.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:51.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.038][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.DEBUG[2025-06-06 07:25:51.041][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:51.045][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:51.047][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-06-06 07:25:51.049][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:51.051][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-06-06 07:25:51.054][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:51.059][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:51.060][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-06-06 07:25:51.062][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:51.064][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-06-06 07:25:51.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.075][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:51.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.086][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:51.096][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.097][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:51.110][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:51.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.127][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.137][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:51.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:51.155][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-06-06 07:25:51.157][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.158][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.165][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.169][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.TRACE[2025-06-06 07:25:51.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.181][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.182][private$selectFields]
biodb.TRACE[2025-06-06 07:25:51.183][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:51.185][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:51.186][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.187][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.191][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.193][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.194][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.196][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.198][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.199][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.200][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.202][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.204][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.206][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:51.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.223][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-06-06 07:25:51.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.226][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.233][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.235][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:51.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.248][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.250][private$selectFields]
biodb.TRACE[2025-06-06 07:25:51.251][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:51.252][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:51.253][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.255][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.256][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.259][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.260][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.261][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.264][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.265][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.266][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.268][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.272][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.273][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:51.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.291][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-06-06 07:25:51.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:51.313][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.324][private$selectFields]
biodb.TRACE[2025-06-06 07:25:51.326][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-06-06 07:25:51.327][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-06-06 07:25:51.328][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.329][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.331][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.333][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.336][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.339][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.340][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.341][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-06-06 07:25:51.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.344][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.346][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.348][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-06-06 07:25:51.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.354][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.365][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-06-06 07:25:51.366][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-06-06 07:25:51.367][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-06-06 07:25:51.391][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-06-06 07:25:51.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-06-06 07:25:51.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:51.400][biodb::testThat]
biodb.INFO [2025-06-06 07:25:51.401][biodb::testThat] Running test function test.wrong.entry (" Wrong entry gives NULL ").
biodb.INFO [2025-06-06 07:25:51.402][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:51.403][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:51.406][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-06-06 07:25:51.407][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:51.409][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-06-06 07:25:51.411][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:51.413][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-06-06 07:25:51.415][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:51.416][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:51.418][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:51.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:51.446][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.447][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.450][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.458][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:51.459][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:51.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.462][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.464][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:51.466][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:51.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.469][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.471][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:51.472][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:51.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.475][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.477][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:51.479][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:51.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.482][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.483][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:51.485][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:51.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.488][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.489][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:51.491][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:51.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.494][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.495][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.499][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.501][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:51.503][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:51.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.505][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.507][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:51.509][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:51.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.512][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.513][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:51.515][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:51.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.518][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.519][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.531][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:51.576][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-06-06 07:25:51.577][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-06-06 07:25:51.588][biodb::testThat]
biodb.INFO [2025-06-06 07:25:51.590][biodb::testThat] Running test function test.wrong.entry.among.good.ones (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-06-06 07:25:51.591][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:51.592][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:51.607][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-06-06 07:25:51.609][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-06-06 07:25:51.610][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-06-06 07:25:51.613][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-06-06 07:25:51.614][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-06-06 07:25:51.618][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-06-06 07:25:51.620][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:51.622][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-06-06 07:25:51.624][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:51.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.627][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.629][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:51.642][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.644][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.646][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.654][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:51.655][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:51.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.658][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.660][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:51.661][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:51.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.664][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.666][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:51.667][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:51.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.670][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.671][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:51.673][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:51.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.676][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.677][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:51.679][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:51.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.682][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.683][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:51.685][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:51.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.687][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.689][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.691][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.693][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.695][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:51.696][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:51.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.699][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.701][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:51.702][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:51.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.705][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:51.708][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:51.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.711][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.718][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.729][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.741][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.746][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:51.752][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.753][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.755][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.764][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.765][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[2025-06-06 07:25:51.768][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.770][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.772][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.780][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:51.782][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:51.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.784][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.786][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:51.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:51.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.792][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:51.793][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:51.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.796][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.798][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:51.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:51.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.804][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:51.805][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:51.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.808][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.810][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:51.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:51.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.827][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:51.828][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:51.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.831][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.832][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:51.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:51.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.838][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:51.839][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:51.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.842][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.844][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:51.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:51.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.849][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:51.851][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:51.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.853][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.855][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:51.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:51.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.861][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.862][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.865][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.866][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:51.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.872][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:51.874][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:51.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.876][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.878][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:51.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:51.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.884][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:51.885][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:51.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.888][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.890][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:51.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:51.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:51.897][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:51.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.899][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.901][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:51.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:51.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.923][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:51.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.934][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:51.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:51.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:51.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:51.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:51.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:51.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:51.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:51.959][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.960][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.963][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:51.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:51.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.969][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:51.971][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:51.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.973][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.975][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:51.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:51.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.980][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:51.981][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:51.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.984][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.986][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:51.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:51.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.991][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:51.992][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:51.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:51.995][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:51.996][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:51.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:51.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.002][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:52.003][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:52.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.006][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.007][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:52.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:52.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.013][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:52.014][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:52.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.016][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.018][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:52.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:52.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.023][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:52.025][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:52.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.027][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.029][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:52.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:52.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.034][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:52.036][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:52.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.038][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:52.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:52.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.045][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:52.047][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:52.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.049][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:52.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:52.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.056][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:52.058][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:52.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.060][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.062][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:52.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:52.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.067][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:52.069][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:52.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.071][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.073][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:52.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:52.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:52.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:52.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:52.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:52.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.094][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:52.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:52.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.136][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.147][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:52.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:52.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:52.162][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-06-06 07:25:52.164][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-06-06 07:25:52.165][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-06-06 07:25:52.181][biodb::testThat]
biodb.INFO [2025-06-06 07:25:52.182][biodb::testThat] Running test function test.peak.table (" The peak table is correct. ").
biodb.INFO [2025-06-06 07:25:52.183][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:52.185][biodb::testThat]
biodb.INFO [2025-06-06 07:25:52.216][biodb::testThat]
biodb.INFO [2025-06-06 07:25:52.218][biodb::testThat] Running test function test.nb.entries (" Nb entries is positive. ").
biodb.INFO [2025-06-06 07:25:52.219][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:52.220][biodb::testThat]
biodb.INFO [2025-06-06 07:25:52.230][biodb::testThat]
biodb.INFO [2025-06-06 07:25:52.232][biodb::testThat] Running test function test.entry.ids (" We can get a list of entry ids. ").
biodb.INFO [2025-06-06 07:25:52.233][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:52.234][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:52.238][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:52.242][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:52.244][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-06-06 07:25:52.246][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:52.249][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-06-06 07:25:52.264][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:52.265][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:52.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.268][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:52.269][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:52.271][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:52.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:52.273][ef$get] fields variable is a list.
biodb.INFO [2025-06-06 07:25:52.275][biodb::testThat]
biodb.INFO [2025-06-06 07:25:52.277][biodb::testThat] Running test function test.annotateMzValues (" annotateMzValues() works correctly. ").
biodb.INFO [2025-06-06 07:25:52.278][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:52.279][biodb::testThat]
biodb.ERROR[2025-06-06 07:25:52.304][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-06-06 07:25:52.325][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-06-06 07:25:52.341][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-06-06 07:25:52.343][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-06-06 07:25:52.344][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-06-06 07:25:52.345][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-06-06 07:25:52.346][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.348][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.351][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-06-06 07:25:52.365][biodb::testContext]
biodb.INFO [2025-06-06 07:25:52.367][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-06 07:25:52.368][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-06-06 07:25:52.369][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-06 07:25:52.370][biodb::testContext]
biodb.INFO [2025-06-06 07:25:52.373][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.0.
biodb.DEBUG[2025-06-06 07:25:52.375][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-06-06 07:25:52.379][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:52.381][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-06-06 07:25:52.382][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-06-06 07:25:52.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.387][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-06-06 07:25:52.388][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-06-06 07:25:52.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.393][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-06-06 07:25:52.394][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-06-06 07:25:52.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.399][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-06-06 07:25:52.400][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-06-06 07:25:52.401][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-06-06 07:25:52.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.405][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.DEBUG[2025-06-06 07:25:52.406][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-06-06 07:25:52.407][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-06-06 07:25:52.409][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-06-06 07:25:52.410][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.413][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-06-06 07:25:52.415][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-06-06 07:25:52.416][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.419][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-06-06 07:25:52.420][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-06-06 07:25:52.422][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-06-06 07:25:52.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.426][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-06-06 07:25:52.428][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-06-06 07:25:52.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.432][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-06-06 07:25:52.434][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-06-06 07:25:52.435][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-06-06 07:25:52.436][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.440][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-06-06 07:25:52.441][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-06-06 07:25:52.442][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-06-06 07:25:52.444][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-06-06 07:25:52.445][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-06-06 07:25:52.446][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-06-06 07:25:52.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.451][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-06-06 07:25:52.452][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-06-06 07:25:52.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.457][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-06-06 07:25:52.459][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-06-06 07:25:52.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.462][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[2025-06-06 07:25:52.463][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-06-06 07:25:52.465][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-06-06 07:25:52.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.469][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-06-06 07:25:52.471][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-06-06 07:25:52.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.476][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-06-06 07:25:52.477][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-06-06 07:25:52.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.482][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-06-06 07:25:52.483][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-06-06 07:25:52.488][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-06-06 07:25:52.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.493][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-06-06 07:25:52.494][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-06-06 07:25:52.496][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-06-06 07:25:52.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.501][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-06-06 07:25:52.503][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.505][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-06-06 07:25:52.506][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.507][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:52.508][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.510][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.511][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.512][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.514][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-06 07:25:52.515][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:52.516][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.518][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-06-06 07:25:52.519][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:52.520][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.522][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.523][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:52.523][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:52.523][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:52.523][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-06 07:25:52.523][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-06 07:25:52.524][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:52.526][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:52.527][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:52.528][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:52.529][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:52.530][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:52.532][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.533][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.534][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:52.535][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:52.537][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.538][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.540][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-06-06 07:25:52.542][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.543][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-06-06 07:25:52.545][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.546][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:52.547][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.549][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.550][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.551][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.553][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-06 07:25:52.554][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:52.555][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.557][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-06-06 07:25:52.558][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:52.559][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.560][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.562][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:52.562][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:52.562][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:52.562][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-06 07:25:52.562][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-06 07:25:52.563][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:52.564][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:52.566][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:52.567][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:52.568][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:52.569][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:52.571][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.572][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.573][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:52.574][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:52.576][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.577][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.579][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-06-06 07:25:52.581][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.582][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-06-06 07:25:52.584][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.585][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:52.586][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.588][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.589][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.590][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.592][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-06 07:25:52.593][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:52.594][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.595][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-06-06 07:25:52.597][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:52.598][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.599][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.601][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.602][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:52.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:52.604][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:52.606][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:52.607][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:52.608][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:52.609][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.611][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.612][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:52.613][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:52.614][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.616][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.617][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-06-06 07:25:52.620][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.621][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-06-06 07:25:52.622][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.623][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:52.625][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.626][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.627][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.629][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.630][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-06 07:25:52.631][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:52.633][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.634][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-06-06 07:25:52.635][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:52.636][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.638][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:52.639][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.640][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:52.642][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:52.643][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:52.644][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:52.645][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:52.646][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:52.648][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:52.649][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.650][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:52.651][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:52.653][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:52.654][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:52.656][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:52.657][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.658][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.683][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.691][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.693][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.706][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.712][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.713][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.723][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[2025-06-06 07:25:52.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.743][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[2025-06-06 07:25:52.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.760][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[2025-06-06 07:25:52.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.766][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[2025-06-06 07:25:52.767][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-06-06 07:25:52.769][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-06-06 07:25:52.771][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-06-06 07:25:52.773][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-06-06 07:25:52.774][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-06 07:25:52.776][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-06 07:25:52.778][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-06-06 07:25:52.780][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-06-06 07:25:52.782][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-06-06 07:25:52.784][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-06 07:25:52.785][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-06 07:25:52.787][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-06-06 07:25:52.789][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-06-06 07:25:52.791][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-06-06 07:25:52.793][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-06-06 07:25:52.795][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-06 07:25:52.797][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-06-06 07:25:52.798][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-06-06 07:25:52.800][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-06 07:25:52.802][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-06-06 07:25:52.804][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-06-06 07:25:52.806][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-06-06 07:25:52.808][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-06-06 07:25:52.810][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-06-06 07:25:52.811][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-06-06 07:25:52.813][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-06-06 07:25:52.815][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-06-06 07:25:52.817][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-06-06 07:25:52.819][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-06-06 07:25:52.821][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-06-06 07:25:52.823][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-06-06 07:25:52.824][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-06-06 07:25:52.826][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-06-06 07:25:52.828][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-06-06 07:25:52.830][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-06-06 07:25:52.832][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-06-06 07:25:52.834][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-06-06 07:25:52.835][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-06-06 07:25:52.837][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-06-06 07:25:52.839][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-06-06 07:25:52.841][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-06-06 07:25:52.843][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-06-06 07:25:52.845][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-06-06 07:25:52.847][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-06-06 07:25:52.848][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-06-06 07:25:52.850][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-06-06 07:25:52.852][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-06-06 07:25:52.854][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-06-06 07:25:52.856][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-06-06 07:25:52.858][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-06-06 07:25:52.860][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-06-06 07:25:52.861][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-06-06 07:25:52.863][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-06-06 07:25:52.865][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-06-06 07:25:52.867][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-06-06 07:25:52.869][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-06-06 07:25:52.871][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-06-06 07:25:52.872][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-06-06 07:25:52.874][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-06-06 07:25:52.876][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-06-06 07:25:52.878][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-06-06 07:25:52.880][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-06-06 07:25:52.882][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-06-06 07:25:52.883][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-06-06 07:25:52.885][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-06-06 07:25:52.887][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-06-06 07:25:52.889][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-06 07:25:52.891][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-06 07:25:52.893][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-06-06 07:25:52.895][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-06-06 07:25:52.896][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-06-06 07:25:52.898][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-06-06 07:25:52.900][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-06-06 07:25:52.902][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-06-06 07:25:52.904][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-06-06 07:25:52.906][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-06-06 07:25:52.908][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-06-06 07:25:52.909][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-06-06 07:25:52.911][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-06-06 07:25:52.913][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-06-06 07:25:52.915][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-06-06 07:25:52.917][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-06-06 07:25:52.919][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-06-06 07:25:52.921][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-06-06 07:25:52.923][initialize] This is biodb version 1.17.0.
biodb.DEBUG[2025-06-06 07:25:52.924][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:52.925][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.927][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.929][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.DEBUG[2025-06-06 07:25:52.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.935][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.937][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[2025-06-06 07:25:52.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.945][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[2025-06-06 07:25:52.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.953][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[2025-06-06 07:25:52.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.964][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.977][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.DEBUG[2025-06-06 07:25:52.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.985][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:52.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:52.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:52.994][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[2025-06-06 07:25:52.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:52.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:52.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:52.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:52.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.021][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.069][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-06-06 07:25:53.070][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-06-06 07:25:53.073][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.074][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.076][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.077][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:53.078][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.079][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.081][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.082][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-06-06 07:25:53.083][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-06-06 07:25:53.085][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:53.086][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.087][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-06-06 07:25:53.088][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-06-06 07:25:53.090][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-06-06 07:25:53.091][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.093][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:53.093][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:53.093][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:53.094][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-06-06 07:25:53.095][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.096][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.098][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:53.099][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.100][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.101][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.102][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-06-06 07:25:53.102][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-06-06 07:25:53.104][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:53.105][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:53.106][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.107][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-06-06 07:25:53.107][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-06-06 07:25:53.109][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-06 07:25:53.111][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-06 07:25:53.113][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-06-06 07:25:53.115][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-06 07:25:53.117][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-06 07:25:53.119][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-06 07:25:53.124][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-06-06 07:25:53.125][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-06-06 07:25:53.127][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-06-06 07:25:53.129][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-06-06 07:25:53.130][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-06 07:25:53.131][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-06 07:25:53.133][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-06-06 07:25:53.134][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-06-06 07:25:53.136][biodb::testThat]
biodb.INFO [2025-06-06 07:25:53.137][biodb::testThat] Running test function test_chebi_convCasToChebi (" convCasToChebi() works. ").
biodb.INFO [2025-06-06 07:25:53.139][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:53.140][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:53.145][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-06-06 07:25:53.149][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.151][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-06-06 07:25:53.153][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.154][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-06-06 07:25:53.159][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.163][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.194][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-06-06 07:25:53.196][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.198][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-06-06 07:25:53.200][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.201][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.208][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.211][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.212][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.DEBUG[2025-06-06 07:25:53.214][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.218][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.220][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-06-06 07:25:53.222][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.224][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-06-06 07:25:53.226][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.227][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.228][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.260][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.261][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.262][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.278][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.282][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.284][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-06-06 07:25:53.285][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.287][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-06-06 07:25:53.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.297][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.301][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[2025-06-06 07:25:53.303][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.307][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.309][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-06-06 07:25:53.311][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.312][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-06-06 07:25:53.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.324][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.325][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.326][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[2025-06-06 07:25:53.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.344][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.348][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.350][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-06-06 07:25:53.352][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.354][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-06-06 07:25:53.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.367][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.371][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.375][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.377][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-06-06 07:25:53.378][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.380][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-06-06 07:25:53.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.396][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.400][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.402][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-06-06 07:25:53.404][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.406][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-06-06 07:25:53.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.416][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-06-06 07:25:53.428][biodb::testThat]
biodb.INFO [2025-06-06 07:25:53.430][biodb::testThat] Running test function test_chebi_convInchiToChebi (" convInchiToChebi() works. ").
biodb.INFO [2025-06-06 07:25:53.431][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:53.432][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:53.436][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.440][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.442][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-06-06 07:25:53.444][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.446][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-06-06 07:25:53.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.465][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:53.470][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:53.471][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-06-06 07:25:53.473][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:53.475][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-06-06 07:25:53.478][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:53.479][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.480][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.486][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.487][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.488][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.490][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".
biodb.INFO [2025-06-06 07:25:53.496][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-06-06 07:25:53.498][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-06-06 07:25:53.499][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-06-06 07:25:53.500][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-06-06 07:25:53.501][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:53.503][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:53.504][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.506][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-06-06 07:25:53.512][biodb::testContext]
biodb.INFO [2025-06-06 07:25:53.514][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-06 07:25:53.515][biodb::testContext] Test context - Test web services
biodb.INFO [2025-06-06 07:25:53.516][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-06 07:25:53.517][biodb::testContext]
biodb.INFO [2025-06-06 07:25:53.520][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.0.
biodb.DEBUG[2025-06-06 07:25:53.522][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-06-06 07:25:53.527][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:53.528][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-06-06 07:25:53.529][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-06-06 07:25:53.531][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.534][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-06-06 07:25:53.536][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-06-06 07:25:53.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.539][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[2025-06-06 07:25:53.540][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-06-06 07:25:53.542][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-06-06 07:25:53.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.547][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-06-06 07:25:53.548][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-06-06 07:25:53.549][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-06-06 07:25:53.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.552][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.554][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-06-06 07:25:53.555][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-06-06 07:25:53.557][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-06-06 07:25:53.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.562][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-06-06 07:25:53.563][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-06-06 07:25:53.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.568][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-06-06 07:25:53.569][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-06-06 07:25:53.570][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-06-06 07:25:53.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.575][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-06-06 07:25:53.576][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-06-06 07:25:53.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.581][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-06-06 07:25:53.583][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-06-06 07:25:53.584][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-06-06 07:25:53.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.589][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-06-06 07:25:53.590][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-06-06 07:25:53.591][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-06-06 07:25:53.593][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-06-06 07:25:53.594][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-06-06 07:25:53.595][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-06-06 07:25:53.597][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.600][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-06-06 07:25:53.602][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-06-06 07:25:53.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.606][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-06-06 07:25:53.608][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-06-06 07:25:53.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.613][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-06-06 07:25:53.614][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-06-06 07:25:53.615][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.619][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-06-06 07:25:53.620][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-06-06 07:25:53.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.625][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-06-06 07:25:53.626][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-06-06 07:25:53.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.631][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-06-06 07:25:53.633][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-06-06 07:25:53.638][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-06-06 07:25:53.640][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.643][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-06-06 07:25:53.645][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-06-06 07:25:53.646][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-06-06 07:25:53.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.659][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-06-06 07:25:53.662][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.663][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-06-06 07:25:53.664][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.666][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:53.667][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.668][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.670][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.671][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.672][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-06 07:25:53.673][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:53.675][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.676][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-06-06 07:25:53.677][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:53.678][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.680][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.681][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:53.681][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:53.681][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:53.681][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-06 07:25:53.681][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-06 07:25:53.682][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:53.684][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.685][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.686][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:53.687][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.688][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.690][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.691][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.692][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:53.693][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:53.694][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.696][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.697][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-06-06 07:25:53.700][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.701][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-06-06 07:25:53.702][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.704][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:53.705][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.706][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.707][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.709][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.710][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-06 07:25:53.711][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:53.712][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.714][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-06-06 07:25:53.715][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:53.716][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.718][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.719][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:53.719][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:53.719][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:53.719][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-06 07:25:53.719][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-06 07:25:53.720][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:53.721][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.723][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.724][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:53.725][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.726][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.727][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.729][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.730][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:53.731][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:53.732][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.734][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.735][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-06-06 07:25:53.738][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.739][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-06-06 07:25:53.740][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.742][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:53.743][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.744][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.746][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.747][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.748][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-06 07:25:53.750][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:53.751][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.752][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-06-06 07:25:53.754][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:53.755][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.756][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.758][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.759][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:53.760][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.761][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.763][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:53.764][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.765][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.766][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.768][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.769][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:53.770][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:53.772][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.773][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.774][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-06-06 07:25:53.777][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.778][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-06-06 07:25:53.779][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.781][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:53.782][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.783][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.785][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.786][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.787][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-06 07:25:53.789][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:53.790][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.791][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-06-06 07:25:53.793][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:53.794][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.795][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:53.797][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.798][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:53.799][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.801][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.802][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:53.803][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:53.804][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:53.806][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:53.807][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.808][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:53.810][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:53.811][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:53.812][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:53.814][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:53.815][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.820][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.824][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.830][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.835][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[2025-06-06 07:25:53.836][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.849][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.861][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[2025-06-06 07:25:53.862][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.873][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[2025-06-06 07:25:53.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.882][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.883][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.886][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.887][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.896][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.898][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.899][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.905][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.910][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.DEBUG[2025-06-06 07:25:53.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:53.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:53.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:53.921][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:53.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:53.924][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-06-06 07:25:53.926][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-06-06 07:25:53.928][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-06-06 07:25:53.930][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-06-06 07:25:53.931][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-06 07:25:53.933][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-06 07:25:53.935][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-06-06 07:25:53.937][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-06-06 07:25:53.939][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-06-06 07:25:53.941][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-06 07:25:53.943][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-06 07:25:53.945][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-06-06 07:25:53.947][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-06-06 07:25:53.949][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-06-06 07:25:53.951][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-06-06 07:25:53.953][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-06 07:25:53.955][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-06-06 07:25:53.957][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-06-06 07:25:53.959][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-06 07:25:53.960][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-06-06 07:25:53.962][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-06-06 07:25:53.964][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-06-06 07:25:53.966][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-06-06 07:25:53.968][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-06-06 07:25:53.970][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-06-06 07:25:53.972][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-06-06 07:25:53.974][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-06-06 07:25:53.976][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-06-06 07:25:53.978][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-06-06 07:25:53.980][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-06-06 07:25:53.982][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-06-06 07:25:53.984][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-06-06 07:25:53.986][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-06-06 07:25:53.988][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-06-06 07:25:53.990][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-06-06 07:25:53.992][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-06-06 07:25:53.994][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-06-06 07:25:53.996][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-06-06 07:25:53.998][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-06-06 07:25:54.000][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-06-06 07:25:54.002][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-06-06 07:25:54.004][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-06-06 07:25:54.006][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-06-06 07:25:54.008][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-06-06 07:25:54.010][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-06-06 07:25:54.012][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-06-06 07:25:54.014][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-06-06 07:25:54.015][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-06-06 07:25:54.017][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-06-06 07:25:54.019][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-06-06 07:25:54.021][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-06-06 07:25:54.023][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-06-06 07:25:54.025][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-06-06 07:25:54.027][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-06-06 07:25:54.029][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-06-06 07:25:54.031][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-06-06 07:25:54.033][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-06-06 07:25:54.035][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-06-06 07:25:54.037][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-06-06 07:25:54.038][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-06-06 07:25:54.040][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-06-06 07:25:54.042][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-06-06 07:25:54.044][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-06-06 07:25:54.046][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-06-06 07:25:54.048][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-06-06 07:25:54.050][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-06-06 07:25:54.052][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-06 07:25:54.054][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-06 07:25:54.055][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-06-06 07:25:54.057][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-06-06 07:25:54.059][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-06-06 07:25:54.061][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-06-06 07:25:54.063][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-06-06 07:25:54.065][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-06-06 07:25:54.067][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-06-06 07:25:54.069][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-06-06 07:25:54.071][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-06-06 07:25:54.073][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-06-06 07:25:54.075][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-06-06 07:25:54.076][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-06-06 07:25:54.078][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-06-06 07:25:54.080][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-06-06 07:25:54.082][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-06-06 07:25:54.084][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-06-06 07:25:54.086][initialize] This is biodb version 1.17.0.
biodb.DEBUG[2025-06-06 07:25:54.088][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:54.089][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.090][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.091][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.092][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.120][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.133][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[2025-06-06 07:25:54.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.146][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.152][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.165][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.173][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.180][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[2025-06-06 07:25:54.181][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.188][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.189][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.204][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[2025-06-06 07:25:54.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.212][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.DEBUG[2025-06-06 07:25:54.213][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.223][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.238][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-06-06 07:25:54.239][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-06-06 07:25:54.242][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.243][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.244][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.246][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:54.247][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.248][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.250][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.251][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-06-06 07:25:54.252][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-06-06 07:25:54.254][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:54.255][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.256][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-06-06 07:25:54.258][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-06-06 07:25:54.259][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-06-06 07:25:54.260][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.262][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:54.262][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:54.262][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:54.263][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-06-06 07:25:54.264][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.266][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.267][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:54.268][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.269][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.271][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.272][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-06-06 07:25:54.272][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-06-06 07:25:54.273][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:54.274][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:54.276][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.277][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-06-06 07:25:54.277][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-06-06 07:25:54.279][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-06 07:25:54.281][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-06 07:25:54.283][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-06-06 07:25:54.285][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-06 07:25:54.287][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-06 07:25:54.289][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-06 07:25:54.294][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-06-06 07:25:54.295][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-06-06 07:25:54.297][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-06-06 07:25:54.298][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-06-06 07:25:54.300][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-06 07:25:54.301][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-06 07:25:54.303][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-06-06 07:25:54.304][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-06-06 07:25:54.306][biodb::testThat]
biodb.INFO [2025-06-06 07:25:54.307][biodb::testThat] Running test function test.chebi.wsGetLiteEntity (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-06-06 07:25:54.308][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:54.310][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:54.314][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-06-06 07:25:54.318][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:54.320][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-06-06 07:25:54.322][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:54.323][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-06-06 07:25:54.328][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:54.332][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:54.334][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-06-06 07:25:54.336][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:54.338][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-06-06 07:25:54.348][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-06-06 07:25:54.350][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-06-06 07:25:54.351][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-06-06 07:25:54.353][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-06-06 07:25:54.354][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.356][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.358][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-06-06 07:25:54.365][biodb::testContext]
biodb.INFO [2025-06-06 07:25:54.366][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-06 07:25:54.367][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-06-06 07:25:54.369][biodb::testContext] ********************************************************************************
biodb.INFO [2025-06-06 07:25:54.370][biodb::testContext]
biodb.INFO [2025-06-06 07:25:54.372][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.0.
biodb.DEBUG[2025-06-06 07:25:54.375][self$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-06-06 07:25:54.379][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:54.381][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-06-06 07:25:54.382][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-06-06 07:25:54.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.387][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-06-06 07:25:54.388][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-06-06 07:25:54.390][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.393][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-06-06 07:25:54.395][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-06-06 07:25:54.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.400][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-06-06 07:25:54.401][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-06-06 07:25:54.402][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-06-06 07:25:54.404][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.406][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[2025-06-06 07:25:54.407][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-06-06 07:25:54.409][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-06-06 07:25:54.410][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-06-06 07:25:54.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.415][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-06-06 07:25:54.417][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-06-06 07:25:54.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.422][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-06-06 07:25:54.423][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-06-06 07:25:54.425][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-06-06 07:25:54.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.429][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-06-06 07:25:54.431][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-06-06 07:25:54.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.434][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.DEBUG[2025-06-06 07:25:54.436][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-06-06 07:25:54.437][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-06-06 07:25:54.439][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-06-06 07:25:54.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.443][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-06-06 07:25:54.445][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-06-06 07:25:54.446][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-06-06 07:25:54.447][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-06-06 07:25:54.449][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-06-06 07:25:54.450][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-06-06 07:25:54.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.456][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-06-06 07:25:54.457][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-06-06 07:25:54.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.463][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-06-06 07:25:54.464][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-06-06 07:25:54.465][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.469][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-06-06 07:25:54.471][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-06-06 07:25:54.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.476][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-06-06 07:25:54.477][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-06-06 07:25:54.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.482][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-06-06 07:25:54.484][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-06-06 07:25:54.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.489][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-06-06 07:25:54.490][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-06-06 07:25:54.495][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-06-06 07:25:54.496][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.498][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.DEBUG[2025-06-06 07:25:54.500][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-06-06 07:25:54.501][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-06-06 07:25:54.503][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-06-06 07:25:54.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.508][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-06-06 07:25:54.510][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.511][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-06-06 07:25:54.513][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.514][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:54.515][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.517][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.518][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.519][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.521][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-06 07:25:54.522][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:54.524][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.525][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-06-06 07:25:54.526][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:54.528][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.529][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.530][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:54.530][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:54.530][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:54.530][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-06 07:25:54.530][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-06 07:25:54.532][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:54.533][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.534][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.536][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:54.537][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.539][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.541][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.542][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:54.543][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:54.545][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.546][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.548][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-06-06 07:25:54.550][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.552][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-06-06 07:25:54.553][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.554][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:54.556][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.557][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.558][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.560][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.561][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-06 07:25:54.563][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:54.572][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.573][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-06-06 07:25:54.575][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:54.576][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.577][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.579][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:54.579][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:54.579][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:54.579][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-06-06 07:25:54.579][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-06-06 07:25:54.580][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:54.581][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.582][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.583][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:54.585][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.586][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.587][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.588][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.590][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:54.591][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:54.592][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.593][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.595][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-06-06 07:25:54.597][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.598][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-06-06 07:25:54.599][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.601][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:54.602][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.603][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.605][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.606][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.607][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-06-06 07:25:54.608][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:54.610][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.611][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-06-06 07:25:54.612][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:54.614][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.615][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.616][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.617][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:54.619][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.621][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:54.622][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.623][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.624][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.626][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.627][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:54.628][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:54.629][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.631][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.632][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-06-06 07:25:54.634][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.636][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-06-06 07:25:54.637][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.638][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:54.639][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.641][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.642][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.643][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.644][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-06-06 07:25:54.646][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:54.647][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.648][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-06-06 07:25:54.650][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:54.651][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.652][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:54.653][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.655][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-06-06 07:25:54.656][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.657][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.658][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:54.659][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:54.661][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:54.662][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:54.663][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.664][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:54.665][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:54.667][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:54.668][self$setPropertyValue]
biodb.DEBUG[2025-06-06 07:25:54.669][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:54.671][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.694][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[2025-06-06 07:25:54.695][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.702][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.718][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.723][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.DEBUG[2025-06-06 07:25:54.724][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.747][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[2025-06-06 07:25:54.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.752][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[2025-06-06 07:25:54.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.765][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.771][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-06-06 07:25:54.773][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-06-06 07:25:54.775][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-06-06 07:25:54.777][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-06-06 07:25:54.779][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-06 07:25:54.781][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-06-06 07:25:54.783][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-06-06 07:25:54.784][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-06-06 07:25:54.786][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-06-06 07:25:54.788][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-06-06 07:25:54.790][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-06 07:25:54.792][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-06-06 07:25:54.794][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-06-06 07:25:54.796][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-06-06 07:25:54.797][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-06-06 07:25:54.799][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-06-06 07:25:54.801][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-06-06 07:25:54.803][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-06-06 07:25:54.805][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-06 07:25:54.807][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-06-06 07:25:54.809][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-06-06 07:25:54.811][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-06-06 07:25:54.813][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-06-06 07:25:54.814][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-06-06 07:25:54.816][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-06-06 07:25:54.818][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-06-06 07:25:54.820][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-06-06 07:25:54.822][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-06-06 07:25:54.824][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-06-06 07:25:54.826][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-06-06 07:25:54.828][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-06-06 07:25:54.830][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-06-06 07:25:54.832][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-06-06 07:25:54.834][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-06-06 07:25:54.836][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-06-06 07:25:54.838][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-06-06 07:25:54.840][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-06-06 07:25:54.842][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-06-06 07:25:54.844][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-06-06 07:25:54.846][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-06-06 07:25:54.847][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-06-06 07:25:54.849][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-06-06 07:25:54.851][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-06-06 07:25:54.853][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-06-06 07:25:54.855][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-06-06 07:25:54.857][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-06-06 07:25:54.859][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-06-06 07:25:54.861][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-06-06 07:25:54.863][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-06-06 07:25:54.865][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-06-06 07:25:54.867][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-06-06 07:25:54.869][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-06-06 07:25:54.871][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-06-06 07:25:54.873][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-06-06 07:25:54.875][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-06-06 07:25:54.877][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-06-06 07:25:54.879][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-06-06 07:25:54.881][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-06-06 07:25:54.883][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-06-06 07:25:54.884][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-06-06 07:25:54.886][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-06-06 07:25:54.888][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-06-06 07:25:54.890][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-06-06 07:25:54.892][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-06-06 07:25:54.894][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-06-06 07:25:54.896][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-06-06 07:25:54.898][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-06 07:25:54.900][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-06 07:25:54.902][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-06-06 07:25:54.904][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-06-06 07:25:54.906][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-06-06 07:25:54.907][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-06-06 07:25:54.909][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-06-06 07:25:54.911][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-06-06 07:25:54.913][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-06-06 07:25:54.915][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-06-06 07:25:54.917][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-06-06 07:25:54.919][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-06-06 07:25:54.921][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-06-06 07:25:54.923][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-06-06 07:25:54.925][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-06-06 07:25:54.927][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-06-06 07:25:54.929][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-06-06 07:25:54.931][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-06-06 07:25:54.933][initialize] This is biodb version 1.17.0.
biodb.DEBUG[2025-06-06 07:25:54.935][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-06-06 07:25:54.936][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.938][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.940][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[2025-06-06 07:25:54.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.979][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.983][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:54.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:54.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:54.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:54.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:54.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:54.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:54.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.002][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.023][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[2025-06-06 07:25:55.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.026][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.042][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.054][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.DEBUG[2025-06-06 07:25:55.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.079][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-06-06 07:25:55.080][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.082][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.084][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-06-06 07:25:55.088][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/R/R-4.5.0/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-06-06 07:25:55.090][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-06-06 07:25:55.092][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:55.094][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-06-06 07:25:55.095][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:55.096][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-06-06 07:25:55.097][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:55.099][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-06-06 07:25:55.100][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:55.101][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-06-06 07:25:55.102][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-06-06 07:25:55.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-06-06 07:25:55.105][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:55.106][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-06-06 07:25:55.107][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-06-06 07:25:55.109][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-06-06 07:25:55.110][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-06-06 07:25:55.111][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-06-06 07:25:55.111][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-06-06 07:25:55.111][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-06-06 07:25:55.113][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-06-06 07:25:55.114][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:55.115][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:55.116][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-06-06 07:25:55.117][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-06-06 07:25:55.119][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-06-06 07:25:55.120][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-06-06 07:25:55.121][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-06-06 07:25:55.121][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-06-06 07:25:55.122][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-06-06 07:25:55.123][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-06-06 07:25:55.125][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-06-06 07:25:55.126][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-06-06 07:25:55.126][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-06-06 07:25:55.128][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-06-06 07:25:55.130][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-06-06 07:25:55.132][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-06-06 07:25:55.134][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-06-06 07:25:55.135][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-06-06 07:25:55.138][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-06-06 07:25:55.142][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-06-06 07:25:55.143][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-06-06 07:25:55.145][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-06-06 07:25:55.147][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-06-06 07:25:55.148][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-06 07:25:55.149][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-06-06 07:25:55.151][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-06-06 07:25:55.152][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-06-06 07:25:55.154][biodb::testThat]
biodb.INFO [2025-06-06 07:25:55.155][biodb::testThat] Running test function test.chebi.encoding.issue.in.xml (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-06-06 07:25:55.157][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-06-06 07:25:55.158][biodb::testThat]
biodb.DEBUG[2025-06-06 07:25:55.162][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-06-06 07:25:55.166][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:55.168][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-06-06 07:25:55.170][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:55.171][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-06-06 07:25:55.176][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
biodb.DEBUG[2025-06-06 07:25:55.180][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-06-06 07:25:55.181][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-06-06 07:25:55.183][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:55.185][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-06-06 07:25:55.190][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-06-06 07:25:55.191][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-06-06 07:25:55.193][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-06-06 07:25:55.195][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-06-06 07:25:55.199][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-06-06 07:25:55.200][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-06-06 07:25:55.202][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-06-06 07:25:55.203][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-06-06 07:25:55.205][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-06-06 07:25:55.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-06-06 07:25:55.222][ef$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.224][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.226][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.234][ef$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:55.235][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:55.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.238][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.239][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-06-06 07:25:55.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-06-06 07:25:55.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.245][ef$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:55.246][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:55.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.249][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.251][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-06-06 07:25:55.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-06-06 07:25:55.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.256][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-06-06 07:25:55.258][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-06-06 07:25:55.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.260][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.262][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-06-06 07:25:55.264][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-06-06 07:25:55.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.266][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.268][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:55.270][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:55.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.272][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.274][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:55.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-06-06 07:25:55.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.279][ef$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:55.281][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:55.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.283][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.285][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-06-06 07:25:55.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-06-06 07:25:55.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.291][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:55.292][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:55.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.295][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:55.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-06-06 07:25:55.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.302][ef$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:55.303][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:55.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.306][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-06-06 07:25:55.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-06-06 07:25:55.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.314][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:55.315][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:55.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.318][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.320][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-06-06 07:25:55.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-06-06 07:25:55.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.325][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:55.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:55.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.329][ef$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.331][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-06-06 07:25:55.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-06-06 07:25:55.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.337][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:55.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:55.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:55.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:55.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-06-06 07:25:55.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-06-06 07:25:55.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.375][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-06-06 07:25:55.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-06-06 07:25:55.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-06-06 07:25:55.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-06-06 07:25:55.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-06-06 07:25:55.391][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-06-06 07:25:55.396][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-06-06 07:25:55.398][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-06-06 07:25:55.399][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-06-06 07:25:55.400][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-06-06 07:25:55.401][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-06-06 07:25:55.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-06-06 07:25:55.404][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-06-06 07:25:55.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-06-06 07:25:55.406][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-06-06 07:25:55.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
>
> proc.time()
user system elapsed
20.953 4.859 39.354
biodbChebi.Rcheck/biodbChebi-Ex.timings
| name | user | system | elapsed | |
| ChebiConn | 0.917 | 3.877 | 13.844 | |
| ChebiEntry | 0.226 | 0.048 | 0.474 | |